AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0685540


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0685540 MtrunA17_Chr4g0033921 92.701 137 9 1 1 136 1 137 1.86e-87 253
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 137 sgRNAs with CRISPR-Local

Find 225 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCACCCTCTTATGAGTTTA+TGG 0.126697 4_4:+49683595 Msa0685540:five_prime_UTR
TTCACAGCAGGAAAAGAATT+TGG 0.180310 4_4:+49686730 Msa0685540:three_prime_UTR
AAATCACCGTTTAATTTAAA+AGG 0.181426 4_4:-49687038 None:intergenic
GATATTCATGGTCTTGTTCT+TGG 0.188953 4_4:+49685698 Msa0685540:three_prime_UTR
TTTCATTTCCTTTCATTTAC+TGG 0.208668 4_4:-49685912 None:intergenic
AAATACAGGAAGTGATAAAA+TGG 0.232913 4_4:-49685761 None:intergenic
TGCAAAGTATGAATCATAAA+AGG 0.239713 4_4:-49684995 None:intergenic
CCAATTTCAGCTGTTAATTC+AGG 0.240777 4_4:+49684050 Msa0685540:CDS
TCATAATTGGACTGCATATC+TGG 0.263482 4_4:-49685884 None:intergenic
CTGAAGAAACGCAGTTTGTT+TGG 0.299600 4_4:+49683546 Msa0685540:five_prime_UTR
AAGTAATTAAGTTAAAATTC+AGG 0.302060 4_4:-49686088 None:intergenic
CCTGAATTAACAGCTGAAAT+TGG 0.305151 4_4:-49684050 None:intergenic
TATTCTGACACGAAACTTAC+AGG 0.313787 4_4:+49686914 Msa0685540:three_prime_UTR
ATTCATTGCTAGATTGTGAT+AGG 0.318140 4_4:+49685048 Msa0685540:three_prime_UTR
AAGTGTTTCCTTGATATTCA+TGG 0.319966 4_4:+49685686 Msa0685540:three_prime_UTR
TTTAGTAACGTCACAAAATC+AGG 0.323017 4_4:-49686974 None:intergenic
CACTCCTAGTGTAATGGAAT+TGG 0.327298 4_4:-49683809 None:intergenic
AAACTGCGTTTCTTCAGTTC+TGG 0.334491 4_4:-49683540 None:intergenic
AGTGCTCTTGATTTAGCATT+TGG 0.344427 4_4:-49683853 None:intergenic
ACTTTATAAGCTCCATTTGT+TGG 0.345161 4_4:+49685545 Msa0685540:three_prime_UTR
ACTTGTTATTTGTCTCTTGT+TGG 0.372194 4_4:+49685990 Msa0685540:three_prime_UTR
CCTGGATTTCGCATGCAAAA+AGG 0.372253 4_4:+49684914 Msa0685540:CDS
AACTGCGTTTCTTCAGTTCT+GGG 0.386153 4_4:-49683539 None:intergenic
CATCTGCCCGGGACGGTACT+AGG 0.399530 4_4:+49685264 Msa0685540:three_prime_UTR
ACTTCCTTCTACAGATGCTT+GGG 0.399626 4_4:+49686489 Msa0685540:three_prime_UTR
ATGCTACTCGACGTGGAACT+TGG 0.407325 4_4:-49685313 None:intergenic
GCACTACTCGATGTGGTACT+TGG 0.410790 4_4:-49685092 None:intergenic
TTGAGGGGTCTAGCTATTAC+CGG 0.413466 4_4:+49686802 Msa0685540:three_prime_UTR
TCAAGCAACTCTTGAGGATA+AGG 0.416696 4_4:-49685448 None:intergenic
CTTCCCCAAGCATCTGTAGA+AGG 0.423340 4_4:-49686493 None:intergenic
GACAAATAACAAGTTTATAT+AGG 0.425105 4_4:-49685981 None:intergenic
ATCTGTAGAAGGAAGTCTTT+CGG 0.427957 4_4:-49686482 None:intergenic
AATAACAAGTTTATATAGGC+AGG 0.429176 4_4:-49685977 None:intergenic
GTTTGTTTGGAAGTTAGAAT+TGG 0.430677 4_4:+49683559 Msa0685540:five_prime_UTR
GACTTCCTTCTACAGATGCT+TGG 0.439445 4_4:+49686488 Msa0685540:three_prime_UTR
TGTATCTTATTATCATCTCC+TGG 0.439751 4_4:-49684227 None:intergenic
GGGCATAAGCAGCCAACAAA+TGG 0.442697 4_4:-49685557 None:intergenic
AATTCTGAACTATGATGAAC+AGG 0.444259 4_4:-49686041 None:intergenic
TAAGAATGCTGAAATATCAT+TGG 0.446744 4_4:-49684180 None:intergenic
AGTAATTAAGTTAAAATTCA+GGG 0.450293 4_4:-49686087 None:intergenic
ATTATAATTGGTATTAGAGC+TGG 0.453380 4_4:+49685173 Msa0685540:three_prime_UTR
TAAGTGCAAAAGAGAAAGAA+AGG 0.461387 4_4:+49683720 Msa0685540:five_prime_UTR
CAAAACAAGTTATTCACCTT+CGG 0.464607 4_4:-49686782 None:intergenic
CTCTGTCTCCATGGAGAAGA+AGG 0.465388 4_4:+49683890 Msa0685540:CDS
CAAGCAACTCTTGAGGATAA+GGG 0.465509 4_4:-49685447 None:intergenic
CGAGATGCTTTGTGATAGCT+AGG 0.466212 4_4:+49685114 Msa0685540:three_prime_UTR
TTTCTCTGTCTCTGTCTCCA+TGG 0.467641 4_4:+49683881 Msa0685540:CDS
AGCTTAAAGAGTTATTCTAA+TGG 0.471587 4_4:+49686857 Msa0685540:three_prime_UTR
TTTCTTGATCATCAAAGGCT+TGG 0.471688 4_4:+49685654 Msa0685540:three_prime_UTR
TGCCATGTGTGAACTGCTCT+AGG 0.477348 4_4:+49686122 Msa0685540:three_prime_UTR
GTTTGGTACCTTCTTCTCCA+TGG 0.477856 4_4:-49683898 None:intergenic
GCAAAGTATGAATCATAAAA+GGG 0.483439 4_4:-49684994 None:intergenic
TGCATGCGAAATCCAGGCAC+TGG 0.488521 4_4:-49684908 None:intergenic
CGTACGGCCCCACCAGTGCC+TGG 0.488782 4_4:+49684896 Msa0685540:CDS
GGGATTTCTCTGTTAAACCT+TGG 0.491201 4_4:+49685808 Msa0685540:three_prime_UTR
GGCCTAAGTTTATAAGAATC+CGG 0.491763 4_4:-49684874 None:intergenic
AACTCTCACTCCTAGTGTAA+TGG 0.494044 4_4:-49683815 None:intergenic
CACTACTCGATGTGGTACTT+GGG 0.494146 4_4:-49685091 None:intergenic
GACAACTGAGAGTGAAGGAG+AGG 0.494274 4_4:-49685854 None:intergenic
GGTCAACTTGACGGAGTTTG+AGG 0.495963 4_4:-49685832 None:intergenic
AATGTCCATAAACTCATAAG+AGG 0.496674 4_4:-49683600 None:intergenic
CATTGTAGAGTGCATCTGCC+CGG 0.501012 4_4:+49685252 Msa0685540:three_prime_UTR
CAGGCACTGGTGGGGCCGTA+CGG 0.501017 4_4:-49684895 None:intergenic
GACCGGATTCTTATAAACTT+AGG 0.501149 4_4:+49684872 Msa0685540:CDS
TCAAGAGTTGCTTGAGCACA+AGG 0.514629 4_4:+49685456 Msa0685540:three_prime_UTR
TGCGAAATCCAGGCACTGGT+GGG 0.515069 4_4:-49684904 None:intergenic
TGCAACAAATCGTGTTTCTC+CGG 0.516143 4_4:-49686821 None:intergenic
AATACAGGAAGTGATAAAAT+GGG 0.517337 4_4:-49685760 None:intergenic
TCCTTATCCTAGTACCGTCC+CGG 0.517426 4_4:-49685271 None:intergenic
GAAGGAGAGGGTCAACTTGA+CGG 0.518085 4_4:-49685841 None:intergenic
GAACAAGACCATGAATATCA+AGG 0.519966 4_4:-49685694 None:intergenic
CCCGGGACGGTACTAGGATA+AGG 0.522604 4_4:+49685270 Msa0685540:three_prime_UTR
AAAAGAGAAAGAAAGGGATA+AGG 0.524180 4_4:+49683727 Msa0685540:five_prime_UTR
AAACACAGAAGGTATTTGAC+CGG 0.527893 4_4:+49684855 Msa0685540:CDS
GCCACTGTAGTTGCAGAACC+AGG 0.531242 4_4:+49684209 Msa0685540:CDS
TTAGCTTGTGTTCTTTACAA+AGG 0.531367 4_4:+49685723 Msa0685540:three_prime_UTR
TATGCAATATATCACTCTGT+TGG 0.533513 4_4:-49686997 None:intergenic
TTCATTGCTAGATTGTGATA+GGG 0.534950 4_4:+49685049 Msa0685540:three_prime_UTR
CATAAACTCATAAGAGGGTG+CGG 0.539090 4_4:-49683594 None:intergenic
TAGTGTAATGGAATTGGAGT+TGG 0.540616 4_4:-49683803 None:intergenic
GATAGTCTCTCTACTTCCAA+TGG 0.546713 4_4:+49684002 Msa0685540:CDS
TACCTACGAAGGGGCTGGAA+AGG 0.549638 4_4:+49685219 Msa0685540:three_prime_UTR
AGTGATAAAATGGGCATCCA+AGG 0.550154 4_4:-49685751 None:intergenic
ATTGTAGAGTGCATCTGCCC+GGG 0.552560 4_4:+49685253 Msa0685540:three_prime_UTR
TGAGAAAACCAGTAAATGAA+AGG 0.560093 4_4:+49685904 Msa0685540:three_prime_UTR
TCTTTACAAAGGAAAGACCT+TGG 0.562227 4_4:+49685734 Msa0685540:three_prime_UTR
CTTAGATGCAAAGGACAAGA+AGG 0.565021 4_4:+49686669 Msa0685540:three_prime_UTR
ATAGGGATTTGCGTATTATG+AGG 0.565045 4_4:+49685066 Msa0685540:three_prime_UTR
TATTAGAGCTGGTTATCTAG+TGG 0.565945 4_4:+49685184 Msa0685540:three_prime_UTR
AGGACTACCTACGAAGGGGC+TGG 0.566159 4_4:+49685214 Msa0685540:three_prime_UTR
CCAGGAAAACTTAGATGCAA+AGG 0.568120 4_4:+49686660 Msa0685540:intron
TCCCTAGAGCAGTTCACACA+TGG 0.569751 4_4:-49686124 None:intergenic
TCTTATAAACTTAGGCCGTA+CGG 0.572177 4_4:+49684880 Msa0685540:CDS
AGTTCCACGTCGAGTAGCAT+AGG 0.573084 4_4:+49685316 Msa0685540:three_prime_UTR
GTTTAAATGGCAGTTAAGAG+TGG 0.573603 4_4:+49684817 Msa0685540:intron
ATGTCTGAGAGTTGTTCCAT+TGG 0.575900 4_4:-49684018 None:intergenic
GTCGAGTAGCATAGGCTGAT+CGG 0.581835 4_4:+49685324 Msa0685540:three_prime_UTR
ACGGTACTAGGATAAGGACT+TGG 0.582201 4_4:+49685276 Msa0685540:three_prime_UTR
TGCTCTAGGGAAATCATCAA+AGG 0.587214 4_4:+49686136 Msa0685540:three_prime_UTR
TTTAAAGATAGCTATCAAAG+AGG 0.588540 4_4:-49685373 None:intergenic
TAGTGTGTCTAGAATGTGGT+TGG 0.588740 4_4:-49685484 None:intergenic
AAGTGCAAAAGAGAAAGAAA+GGG 0.589842 4_4:+49683721 Msa0685540:five_prime_UTR
CAGTTAAGAGTGGACTTGAC+TGG 0.592282 4_4:+49684827 Msa0685540:intron
CAAATGATAATTACATTGAG+AGG 0.597515 4_4:+49685953 Msa0685540:three_prime_UTR
ATGCGAAATCCAGGCACTGG+TGG 0.601200 4_4:-49684905 None:intergenic
ATAAACTCATAAGAGGGTGC+GGG 0.602672 4_4:-49683593 None:intergenic
CCTTATCCTAGTACCGTCCC+GGG 0.604292 4_4:-49685270 None:intergenic
ATAACAAGTTTATATAGGCA+GGG 0.608125 4_4:-49685976 None:intergenic
CGGTACTAGGATAAGGACTT+GGG 0.608813 4_4:+49685277 Msa0685540:three_prime_UTR
CGGAAAGGACTACCTACGAA+GGG 0.609396 4_4:+49685209 Msa0685540:three_prime_UTR
ACAACTGAGAGTGAAGGAGA+GGG 0.610173 4_4:-49685853 None:intergenic
CTTCCTTCTACAGATGCTTG+GGG 0.611133 4_4:+49686490 Msa0685540:three_prime_UTR
GCCATGTGTGAACTGCTCTA+GGG 0.611353 4_4:+49686123 Msa0685540:three_prime_UTR
AATACATGATGCAAATGCGA+AGG 0.617704 4_4:-49685632 None:intergenic
GGTTATCTAGTGGCTCGGAA+AGG 0.622321 4_4:+49685194 Msa0685540:three_prime_UTR
AGAGCAGTTCACACATGGCA+AGG 0.623428 4_4:-49686119 None:intergenic
CGACGAAGGCATAAACATGA+AGG 0.625407 4_4:-49687072 None:intergenic
GAGCTGGTTATCTAGTGGCT+CGG 0.625704 4_4:+49685189 Msa0685540:three_prime_UTR
ATGTCCATAAACTCATAAGA+GGG 0.625716 4_4:-49683599 None:intergenic
TTGACGGAGTTTGAGGACCA+AGG 0.628309 4_4:-49685825 None:intergenic
GACTGGTGTTCAAACACAGA+AGG 0.630186 4_4:+49684844 Msa0685540:CDS
ACAGAGACAACTGAGAGTGA+AGG 0.635799 4_4:-49685859 None:intergenic
AGCCTTTCCAGCCCCTTCGT+AGG 0.637549 4_4:-49685221 None:intergenic
AACTCCAATTCCATTACACT+AGG 0.641122 4_4:+49683805 Msa0685540:CDS
ATGAGTATCAGTTGAAACAC+AGG 0.645590 4_4:+49683751 Msa0685540:five_prime_UTR
GCGAAATCCAGGCACTGGTG+GGG 0.648008 4_4:-49684903 None:intergenic
TCCTGGTTCTGCAACTACAG+TGG 0.653749 4_4:-49684210 None:intergenic
TAGAGTGCATCTGCCCGGGA+CGG 0.654179 4_4:+49685257 Msa0685540:three_prime_UTR
TTGTGCTCAAGCAACTCTTG+AGG 0.654734 4_4:-49685454 None:intergenic
AGAAATACTCAATTGTACCA+TGG 0.664939 4_4:+49686541 Msa0685540:three_prime_UTR
TCGGAAAGGACTACCTACGA+AGG 0.667413 4_4:+49685208 Msa0685540:three_prime_UTR
GCATCTCGCACTACTCGATG+TGG 0.667615 4_4:-49685099 None:intergenic
AACAGAGAAATCCCACAAGG+TGG 0.675602 4_4:-49685799 None:intergenic
TCAGCCTATGCTACTCGACG+TGG 0.688891 4_4:-49685320 None:intergenic
GCAAATGCGAAGGTCACTTG+TGG 0.700215 4_4:-49685622 None:intergenic
GGAAAGGACTACCTACGAAG+GGG 0.701741 4_4:+49685210 Msa0685540:three_prime_UTR
TTTAACAGAGAAATCCCACA+AGG 0.759188 4_4:-49685802 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAAAAAAAAATAAAAATAT+TGG - chr4_4:49686172-49686191 None:intergenic 0.0%
!!! AAGAATTTATTTTATTTGTA+TGG + chr4_4:49683665-49683684 Msa0685540:five_prime_UTR 10.0%
!! AAAAGATACATAATAAATAA+AGG - chr4_4:49684078-49684097 None:intergenic 10.0%
!!! AAAATATTTTACATGATAAA+AGG - chr4_4:49684698-49684717 None:intergenic 10.0%
!!! TTTTGATACTTAATTATAAT+TGG + chr4_4:49685161-49685180 Msa0685540:three_prime_UTR 10.0%
!!! TATTTATTATGTATCTTTTG+AGG + chr4_4:49684079-49684098 Msa0685540:intron 15.0%
!!! AAATATTTTTCTGAAGAATA+TGG + chr4_4:49684709-49684728 Msa0685540:intron 15.0%
!! AGTAATTAAGTTAAAATTCA+GGG - chr4_4:49686090-49686109 None:intergenic 15.0%
!! AAGTAATTAAGTTAAAATTC+AGG - chr4_4:49686091-49686110 None:intergenic 15.0%
!! AAGAATGAATGAATAATTTA+TGG - chr4_4:49686233-49686252 None:intergenic 15.0%
!! ATATATATTATCATGATTCA+TGG - chr4_4:49686389-49686408 None:intergenic 15.0%
!! TTTAGATTGGAATCAATTTA+TGG - chr4_4:49684269-49684288 None:intergenic 20.0%
!!! TTTTGTTAAGAATCTTACAT+CGG + chr4_4:49684412-49684431 Msa0685540:intron 20.0%
!! TTTACTTTACAATTACAAGT+TGG + chr4_4:49684458-49684477 Msa0685540:intron 20.0%
!!! ATATTTTACATGATAAAAGG+AGG - chr4_4:49684695-49684714 None:intergenic 20.0%
!! GACAAATAACAAGTTTATAT+AGG - chr4_4:49685984-49686003 None:intergenic 20.0%
!!! TTTGAGCCTTTTAAATTAAA+CGG + chr4_4:49687032-49687051 Msa0685540:three_prime_UTR 20.0%
!!! AAATCACCGTTTAATTTAAA+AGG - chr4_4:49687041-49687060 None:intergenic 20.0%
! AATGAATAAGTGAAGTAGTT+TGG - chr4_4:49683918-49683937 None:intergenic 25.0%
! TAAGAATGCTGAAATATCAT+TGG - chr4_4:49684183-49684202 None:intergenic 25.0%
! CTTCAAACATAAACAAATTG+TGG + chr4_4:49684624-49684643 Msa0685540:intron 25.0%
! TTGTAATCTTGTGGTTTAAA+TGG + chr4_4:49684804-49684823 Msa0685540:intron 25.0%
! GCAAAGTATGAATCATAAAA+GGG - chr4_4:49684997-49685016 None:intergenic 25.0%
! TGCAAAGTATGAATCATAAA+AGG - chr4_4:49684998-49685017 None:intergenic 25.0%
! ATTATAATTGGTATTAGAGC+TGG + chr4_4:49685173-49685192 Msa0685540:three_prime_UTR 25.0%
! TTTAAAGATAGCTATCAAAG+AGG - chr4_4:49685376-49685395 None:intergenic 25.0%
!! TGTATTTTCTTGATCATCAA+AGG + chr4_4:49685649-49685668 Msa0685540:three_prime_UTR 25.0%
! AATACAGGAAGTGATAAAAT+GGG - chr4_4:49685763-49685782 None:intergenic 25.0%
! AAATACAGGAAGTGATAAAA+TGG - chr4_4:49685764-49685783 None:intergenic 25.0%
!! ATTTTATCACTTCCTGTATT+TGG + chr4_4:49685763-49685782 Msa0685540:three_prime_UTR 25.0%
!!! TTTTTTCACTAACCAAATAC+AGG - chr4_4:49685778-49685797 None:intergenic 25.0%
!!! TTTACTGGTTTTCTCATAAT+TGG - chr4_4:49685900-49685919 None:intergenic 25.0%
! TTTCATTTCCTTTCATTTAC+TGG - chr4_4:49685915-49685934 None:intergenic 25.0%
! CAAATGATAATTACATTGAG+AGG + chr4_4:49685953-49685972 Msa0685540:three_prime_UTR 25.0%
! ATAACAAGTTTATATAGGCA+GGG - chr4_4:49685979-49685998 None:intergenic 25.0%
! AATAACAAGTTTATATAGGC+AGG - chr4_4:49685980-49685999 None:intergenic 25.0%
! TGAGATAAAACTTAATCTCA+GGG - chr4_4:49686308-49686327 None:intergenic 25.0%
! TTGAGATAAAACTTAATCTC+AGG - chr4_4:49686309-49686328 None:intergenic 25.0%
! AGCTTAAAGAGTTATTCTAA+TGG + chr4_4:49686857-49686876 Msa0685540:three_prime_UTR 25.0%
! TGATGAGCTCATAAAAATAA+AGG + chr4_4:49686886-49686905 Msa0685540:three_prime_UTR 25.0%
GTTTGTTTGGAAGTTAGAAT+TGG + chr4_4:49683559-49683578 Msa0685540:five_prime_UTR 30.0%
ATGTCCATAAACTCATAAGA+GGG - chr4_4:49683602-49683621 None:intergenic 30.0%
AATGTCCATAAACTCATAAG+AGG - chr4_4:49683603-49683622 None:intergenic 30.0%
TAAGTGCAAAAGAGAAAGAA+AGG + chr4_4:49683720-49683739 Msa0685540:five_prime_UTR 30.0%
AAGTGCAAAAGAGAAAGAAA+GGG + chr4_4:49683721-49683740 Msa0685540:five_prime_UTR 30.0%
AAAAGAGAAAGAAAGGGATA+AGG + chr4_4:49683727-49683746 Msa0685540:five_prime_UTR 30.0%
TGTATCTTATTATCATCTCC+TGG - chr4_4:49684230-49684249 None:intergenic 30.0%
! AGAAACACACACTTTTAGAT+TGG - chr4_4:49684282-49684301 None:intergenic 30.0%
ATCAATCAACTTGATGAACT+AGG + chr4_4:49684304-49684323 Msa0685540:intron 30.0%
! AGTTTTCATGCCCAATTAAT+CGG + chr4_4:49684346-49684365 Msa0685540:intron 30.0%
GAAACAAATTAAATCCCACA+GGG - chr4_4:49684375-49684394 None:intergenic 30.0%
AGAAACAAATTAAATCCCAC+AGG - chr4_4:49684376-49684395 None:intergenic 30.0%
! TGTAAAGTAAACACGTTTTC+AGG - chr4_4:49684449-49684468 None:intergenic 30.0%
!!! ATTACAAGTTGGTTTTGTAG+AGG + chr4_4:49684469-49684488 Msa0685540:intron 30.0%
! TTGTTTATGTTTGAAGCTAC+AGG - chr4_4:49684620-49684639 None:intergenic 30.0%
! TTTTACATGATAAAAGGAGG+AGG - chr4_4:49684692-49684711 None:intergenic 30.0%
!! GGATTGATTTTGTAATCTTG+TGG + chr4_4:49684795-49684814 Msa0685540:intron 30.0%
ATTCATTGCTAGATTGTGAT+AGG + chr4_4:49685048-49685067 Msa0685540:three_prime_UTR 30.0%
TTCATTGCTAGATTGTGATA+GGG + chr4_4:49685049-49685068 Msa0685540:three_prime_UTR 30.0%
!!! TGATAGCTAGGTTTTAAAAG+AGG + chr4_4:49685126-49685145 Msa0685540:three_prime_UTR 30.0%
!!! GATAGCTAGGTTTTAAAAGA+GGG + chr4_4:49685127-49685146 Msa0685540:three_prime_UTR 30.0%
! AGGATAAGGGTTTTTAAATG+GGG - chr4_4:49685437-49685456 None:intergenic 30.0%
! GAGGATAAGGGTTTTTAAAT+GGG - chr4_4:49685438-49685457 None:intergenic 30.0%
! TGAGGATAAGGGTTTTTAAA+TGG - chr4_4:49685439-49685458 None:intergenic 30.0%
!! TTTTTAGTGTGTCTAGAATG+TGG - chr4_4:49685491-49685510 None:intergenic 30.0%
TTTCACAGAAAAATGGTCAT+CGG - chr4_4:49685514-49685533 None:intergenic 30.0%
! GCTCTTATTTCACAGAAAAA+TGG - chr4_4:49685521-49685540 None:intergenic 30.0%
ACTTTATAAGCTCCATTTGT+TGG + chr4_4:49685545-49685564 Msa0685540:three_prime_UTR 30.0%
AAGTGTTTCCTTGATATTCA+TGG + chr4_4:49685686-49685705 Msa0685540:three_prime_UTR 30.0%
!! TTAGCTTGTGTTCTTTACAA+AGG + chr4_4:49685723-49685742 Msa0685540:three_prime_UTR 30.0%
TGAGAAAACCAGTAAATGAA+AGG + chr4_4:49685904-49685923 Msa0685540:three_prime_UTR 30.0%
!! ACTTGTTATTTGTCTCTTGT+TGG + chr4_4:49685990-49686009 Msa0685540:three_prime_UTR 30.0%
AATTCTGAACTATGATGAAC+AGG - chr4_4:49686044-49686063 None:intergenic 30.0%
AGAAATACTCAATTGTACCA+TGG + chr4_4:49686541-49686560 Msa0685540:three_prime_UTR 30.0%
!!! CTTTTTTGTATAATCAGCCA+TGG - chr4_4:49686561-49686580 None:intergenic 30.0%
CATGGCTGATTATACAAAAA+AGG + chr4_4:49686559-49686578 Msa0685540:three_prime_UTR 30.0%
CAAAACAAGTTATTCACCTT+CGG - chr4_4:49686785-49686804 None:intergenic 30.0%
!!! AAGGTGAATAACTTGTTTTG+AGG + chr4_4:49686785-49686804 Msa0685540:three_prime_UTR 30.0%
!!! AGGTGAATAACTTGTTTTGA+GGG + chr4_4:49686786-49686805 Msa0685540:three_prime_UTR 30.0%
TTTAGTAACGTCACAAAATC+AGG - chr4_4:49686977-49686996 None:intergenic 30.0%
TATGCAATATATCACTCTGT+TGG - chr4_4:49687000-49687019 None:intergenic 30.0%
ATGAGTATCAGTTGAAACAC+AGG + chr4_4:49683751-49683770 Msa0685540:five_prime_UTR 35.0%
! TAGTGTAATGGAATTGGAGT+TGG - chr4_4:49683806-49683825 None:intergenic 35.0%
AACTCCAATTCCATTACACT+AGG + chr4_4:49683805-49683824 Msa0685540:CDS 35.0%
AGTGCTCTTGATTTAGCATT+TGG - chr4_4:49683856-49683875 None:intergenic 35.0%
TTCTCAAACTACATCAAGCA+AGG - chr4_4:49683949-49683968 None:intergenic 35.0%
CCTGAATTAACAGCTGAAAT+TGG - chr4_4:49684053-49684072 None:intergenic 35.0%
CCAATTTCAGCTGTTAATTC+AGG + chr4_4:49684050-49684069 Msa0685540:CDS 35.0%
! ACTAGTTCTTCTTGCTTTGT+AGG + chr4_4:49684134-49684153 Msa0685540:intron 35.0%
TGGAATCAATTTATGGTGCA+TGG - chr4_4:49684262-49684281 None:intergenic 35.0%
AACAAAAGTTCTCACAACGT+GGG - chr4_4:49684510-49684529 None:intergenic 35.0%
AAACAAAAGTTCTCACAACG+TGG - chr4_4:49684511-49684530 None:intergenic 35.0%
AGGCTAAAGGGAAAATAACA+AGG - chr4_4:49684672-49684691 None:intergenic 35.0%
GTTTAAATGGCAGTTAAGAG+TGG + chr4_4:49684817-49684836 Msa0685540:intron 35.0%
!! AAACACAGAAGGTATTTGAC+CGG + chr4_4:49684855-49684874 Msa0685540:CDS 35.0%
GACCGGATTCTTATAAACTT+AGG + chr4_4:49684872-49684891 Msa0685540:CDS 35.0%
GGCCTAAGTTTATAAGAATC+CGG - chr4_4:49684877-49684896 None:intergenic 35.0%
TCTTATAAACTTAGGCCGTA+CGG + chr4_4:49684880-49684899 Msa0685540:CDS 35.0%
ATAGGGATTTGCGTATTATG+AGG + chr4_4:49685066-49685085 Msa0685540:three_prime_UTR 35.0%
TATTAGAGCTGGTTATCTAG+TGG + chr4_4:49685184-49685203 Msa0685540:three_prime_UTR 35.0%
!! GCATTGATGTTTTGTAACGA+GGG - chr4_4:49685580-49685599 None:intergenic 35.0%
CCAAAAAATTGAGAAGTTGC+AGG - chr4_4:49685602-49685621 None:intergenic 35.0%
!!! CCTGCAACTTCTCAATTTTT+TGG + chr4_4:49685599-49685618 Msa0685540:three_prime_UTR 35.0%
AATACATGATGCAAATGCGA+AGG - chr4_4:49685635-49685654 None:intergenic 35.0%
TTTCTTGATCATCAAAGGCT+TGG + chr4_4:49685654-49685673 Msa0685540:three_prime_UTR 35.0%
GAACAAGACCATGAATATCA+AGG - chr4_4:49685697-49685716 None:intergenic 35.0%
!! GATATTCATGGTCTTGTTCT+TGG + chr4_4:49685698-49685717 Msa0685540:three_prime_UTR 35.0%
TCTTTACAAAGGAAAGACCT+TGG + chr4_4:49685734-49685753 Msa0685540:three_prime_UTR 35.0%
TAGTGAAAAAATCCACCTTG+TGG + chr4_4:49685787-49685806 Msa0685540:three_prime_UTR 35.0%
AGTGAAAAAATCCACCTTGT+GGG + chr4_4:49685788-49685807 Msa0685540:three_prime_UTR 35.0%
TTTAACAGAGAAATCCCACA+AGG - chr4_4:49685805-49685824 None:intergenic 35.0%
TCATAATTGGACTGCATATC+TGG - chr4_4:49685887-49685906 None:intergenic 35.0%
! TCGTTGAAGTTGACTTTGTT+AGG + chr4_4:49686444-49686463 Msa0685540:intron 35.0%
ATCTGTAGAAGGAAGTCTTT+CGG - chr4_4:49686485-49686504 None:intergenic 35.0%
! ATCTAAGTTTTCCTGGAATC+GGG - chr4_4:49686656-49686675 None:intergenic 35.0%
! CATCTAAGTTTTCCTGGAAT+CGG - chr4_4:49686657-49686676 None:intergenic 35.0%
CTCAAAAAATCATTCACAGC+AGG + chr4_4:49686718-49686737 Msa0685540:three_prime_UTR 35.0%
TTCACAGCAGGAAAAGAATT+TGG + chr4_4:49686730-49686749 Msa0685540:three_prime_UTR 35.0%
! TATTCACCTTCGGAGTTTTT+AGG - chr4_4:49686775-49686794 None:intergenic 35.0%
!!! GGTGAATAACTTGTTTTGAG+GGG + chr4_4:49686787-49686806 Msa0685540:three_prime_UTR 35.0%
TATTCTGACACGAAACTTAC+AGG + chr4_4:49686914-49686933 Msa0685540:three_prime_UTR 35.0%
AAACTGCGTTTCTTCAGTTC+TGG - chr4_4:49683543-49683562 None:intergenic 40.0%
! CTGAAGAAACGCAGTTTGTT+TGG + chr4_4:49683546-49683565 Msa0685540:five_prime_UTR 40.0%
! ATAAACTCATAAGAGGGTGC+GGG - chr4_4:49683596-49683615 None:intergenic 40.0%
CATAAACTCATAAGAGGGTG+CGG - chr4_4:49683597-49683616 None:intergenic 40.0%
! CACTCCTAGTGTAATGGAAT+TGG - chr4_4:49683812-49683831 None:intergenic 40.0%
AACTCTCACTCCTAGTGTAA+TGG - chr4_4:49683818-49683837 None:intergenic 40.0%
GATAGTCTCTCTACTTCCAA+TGG + chr4_4:49684002-49684021 Msa0685540:CDS 40.0%
ATGTCTGAGAGTTGTTCCAT+TGG - chr4_4:49684021-49684040 None:intergenic 40.0%
TGTTATCTTGACTTTGCCAC+TGG + chr4_4:49684582-49684601 Msa0685540:intron 40.0%
GATAAAAGGAGGAGGCTAAA+GGG - chr4_4:49684684-49684703 None:intergenic 40.0%
TGATAAAAGGAGGAGGCTAA+AGG - chr4_4:49684685-49684704 None:intergenic 40.0%
! TTTCTTGAACCCTGCTGTTT+AGG + chr4_4:49684772-49684791 Msa0685540:intron 40.0%
! TTCTTGAACCCTGCTGTTTA+GGG + chr4_4:49684773-49684792 Msa0685540:intron 40.0%
AATCAATCCCCTAAACAGCA+GGG - chr4_4:49684784-49684803 None:intergenic 40.0%
AAATCAATCCCCTAAACAGC+AGG - chr4_4:49684785-49684804 None:intergenic 40.0%
CAAGCAACTCTTGAGGATAA+GGG - chr4_4:49685450-49685469 None:intergenic 40.0%
TCAAGCAACTCTTGAGGATA+AGG - chr4_4:49685451-49685470 None:intergenic 40.0%
! TAGTGTGTCTAGAATGTGGT+TGG - chr4_4:49685487-49685506 None:intergenic 40.0%
!!! GGCATTGATGTTTTGTAACG+AGG - chr4_4:49685581-49685600 None:intergenic 40.0%
AGTGATAAAATGGGCATCCA+AGG - chr4_4:49685754-49685773 None:intergenic 40.0%
GGGATTTCTCTGTTAAACCT+TGG + chr4_4:49685808-49685827 Msa0685540:three_prime_UTR 40.0%
!! TGCTCTAGGGAAATCATCAA+AGG + chr4_4:49686136-49686155 Msa0685540:three_prime_UTR 40.0%
ACTTCCTTCTACAGATGCTT+GGG + chr4_4:49686489-49686508 Msa0685540:three_prime_UTR 40.0%
! CGATTTTTCTCCTCTGTATG+TGG + chr4_4:49686586-49686605 Msa0685540:intron 40.0%
! ACATTTGATTTCCCGATTCC+AGG + chr4_4:49686642-49686661 Msa0685540:intron 40.0%
! CCTTTGCATCTAAGTTTTCC+TGG - chr4_4:49686663-49686682 None:intergenic 40.0%
CCAGGAAAACTTAGATGCAA+AGG + chr4_4:49686660-49686679 Msa0685540:intron 40.0%
CTTAGATGCAAAGGACAAGA+AGG + chr4_4:49686669-49686688 Msa0685540:three_prime_UTR 40.0%
ATTGAGCCTAAAAACTCCGA+AGG + chr4_4:49686766-49686785 Msa0685540:three_prime_UTR 40.0%
TGCAACAAATCGTGTTTCTC+CGG - chr4_4:49686824-49686843 None:intergenic 40.0%
CGCACCCTCTTATGAGTTTA+TGG + chr4_4:49683595-49683614 Msa0685540:five_prime_UTR 45.0%
TTTCTCTGTCTCTGTCTCCA+TGG + chr4_4:49683881-49683900 Msa0685540:CDS 45.0%
GTTTGGTACCTTCTTCTCCA+TGG - chr4_4:49683901-49683920 None:intergenic 45.0%
CACAGGGAAGCCGATTAATT+GGG - chr4_4:49684359-49684378 None:intergenic 45.0%
! CAATTAATCGGCTTCCCTGT+GGG + chr4_4:49684358-49684377 Msa0685540:intron 45.0%
!! GGTTTTGTAGAGGTTGCGTT+AGG + chr4_4:49684479-49684498 Msa0685540:intron 45.0%
AAGTTCTCACAACGTGGGTT+GGG - chr4_4:49684505-49684524 None:intergenic 45.0%
AAAGTTCTCACAACGTGGGT+TGG - chr4_4:49684506-49684525 None:intergenic 45.0%
! GTTTGAAGCTACAGGTTGCA+TGG - chr4_4:49684612-49684631 None:intergenic 45.0%
! TCTTGAACCCTGCTGTTTAG+GGG + chr4_4:49684774-49684793 Msa0685540:intron 45.0%
! CAGTTAAGAGTGGACTTGAC+TGG + chr4_4:49684827-49684846 Msa0685540:intron 45.0%
GACTGGTGTTCAAACACAGA+AGG + chr4_4:49684844-49684863 Msa0685540:CDS 45.0%
! CCTTTTTGCATGCGAAATCC+AGG - chr4_4:49684917-49684936 None:intergenic 45.0%
CCTGGATTTCGCATGCAAAA+AGG + chr4_4:49684914-49684933 Msa0685540:CDS 45.0%
GGATTTCGCATGCAAAAAGG+AGG + chr4_4:49684917-49684936 Msa0685540:CDS 45.0%
CACTACTCGATGTGGTACTT+GGG - chr4_4:49685094-49685113 None:intergenic 45.0%
CGAGATGCTTTGTGATAGCT+AGG + chr4_4:49685114-49685133 Msa0685540:three_prime_UTR 45.0%
ACGGTACTAGGATAAGGACT+TGG + chr4_4:49685276-49685295 Msa0685540:three_prime_UTR 45.0%
CGGTACTAGGATAAGGACTT+GGG + chr4_4:49685277-49685296 Msa0685540:three_prime_UTR 45.0%
! AAGGGTTTTTAAATGGGGCG+AGG - chr4_4:49685432-49685451 None:intergenic 45.0%
TTGTGCTCAAGCAACTCTTG+AGG - chr4_4:49685457-49685476 None:intergenic 45.0%
TCAAGAGTTGCTTGAGCACA+AGG + chr4_4:49685456-49685475 Msa0685540:three_prime_UTR 45.0%
AACAGAGAAATCCCACAAGG+TGG - chr4_4:49685802-49685821 None:intergenic 45.0%
ACAACTGAGAGTGAAGGAGA+GGG - chr4_4:49685856-49685875 None:intergenic 45.0%
ACAGAGACAACTGAGAGTGA+AGG - chr4_4:49685862-49685881 None:intergenic 45.0%
GACTTCCTTCTACAGATGCT+TGG + chr4_4:49686488-49686507 Msa0685540:three_prime_UTR 45.0%
CTTCCTTCTACAGATGCTTG+GGG + chr4_4:49686490-49686509 Msa0685540:three_prime_UTR 45.0%
TTGAGGGGTCTAGCTATTAC+CGG + chr4_4:49686802-49686821 Msa0685540:three_prime_UTR 45.0%
CTCTGTCTCCATGGAGAAGA+AGG + chr4_4:49683890-49683909 Msa0685540:CDS 50.0%
!! TCCTGGTTCTGCAACTACAG+TGG - chr4_4:49684213-49684232 None:intergenic 50.0%
CCACAGGGAAGCCGATTAAT+TGG - chr4_4:49684360-49684379 None:intergenic 50.0%
! CCAATTAATCGGCTTCCCTG+TGG + chr4_4:49684357-49684376 Msa0685540:intron 50.0%
CAGGTTGCATGGTATACCAG+TGG - chr4_4:49684601-49684620 None:intergenic 50.0%
GCACTACTCGATGTGGTACT+TGG - chr4_4:49685095-49685114 None:intergenic 50.0%
GAGCTGGTTATCTAGTGGCT+CGG + chr4_4:49685189-49685208 Msa0685540:three_prime_UTR 50.0%
! GGTTATCTAGTGGCTCGGAA+AGG + chr4_4:49685194-49685213 Msa0685540:three_prime_UTR 50.0%
TCGGAAAGGACTACCTACGA+AGG + chr4_4:49685208-49685227 Msa0685540:three_prime_UTR 50.0%
CGGAAAGGACTACCTACGAA+GGG + chr4_4:49685209-49685228 Msa0685540:three_prime_UTR 50.0%
GGAAAGGACTACCTACGAAG+GGG + chr4_4:49685210-49685229 Msa0685540:three_prime_UTR 50.0%
CATTGTAGAGTGCATCTGCC+CGG + chr4_4:49685252-49685271 Msa0685540:three_prime_UTR 50.0%
ATTGTAGAGTGCATCTGCCC+GGG + chr4_4:49685253-49685272 Msa0685540:three_prime_UTR 50.0%
TCCTTATCCTAGTACCGTCC+CGG - chr4_4:49685274-49685293 None:intergenic 50.0%
ATGCTACTCGACGTGGAACT+TGG - chr4_4:49685316-49685335 None:intergenic 50.0%
AGTTCCACGTCGAGTAGCAT+AGG + chr4_4:49685316-49685335 Msa0685540:three_prime_UTR 50.0%
GTCGAGTAGCATAGGCTGAT+CGG + chr4_4:49685324-49685343 Msa0685540:three_prime_UTR 50.0%
GGGCATAAGCAGCCAACAAA+TGG - chr4_4:49685560-49685579 None:intergenic 50.0%
GCAAATGCGAAGGTCACTTG+TGG - chr4_4:49685625-49685644 None:intergenic 50.0%
TTGACGGAGTTTGAGGACCA+AGG - chr4_4:49685828-49685847 None:intergenic 50.0%
GGTCAACTTGACGGAGTTTG+AGG - chr4_4:49685835-49685854 None:intergenic 50.0%
GAAGGAGAGGGTCAACTTGA+CGG - chr4_4:49685844-49685863 None:intergenic 50.0%
GACAACTGAGAGTGAAGGAG+AGG - chr4_4:49685857-49685876 None:intergenic 50.0%
AGAGCAGTTCACACATGGCA+AGG - chr4_4:49686122-49686141 None:intergenic 50.0%
TGCCATGTGTGAACTGCTCT+AGG + chr4_4:49686122-49686141 Msa0685540:three_prime_UTR 50.0%
GCCATGTGTGAACTGCTCTA+GGG + chr4_4:49686123-49686142 Msa0685540:three_prime_UTR 50.0%
TCCCTAGAGCAGTTCACACA+TGG - chr4_4:49686127-49686146 None:intergenic 50.0%
CTTCCCCAAGCATCTGTAGA+AGG - chr4_4:49686496-49686515 None:intergenic 50.0%
TCCTCTGTATGTGGCTGTCA+TGG + chr4_4:49686595-49686614 Msa0685540:intron 50.0%
TCCATGACAGCCACATACAG+AGG - chr4_4:49686599-49686618 None:intergenic 50.0%
GCCACTGTAGTTGCAGAACC+AGG + chr4_4:49684209-49684228 Msa0685540:CDS 55.0%
!! TGCGAAATCCAGGCACTGGT+GGG - chr4_4:49684907-49684926 None:intergenic 55.0%
!! ATGCGAAATCCAGGCACTGG+TGG - chr4_4:49684908-49684927 None:intergenic 55.0%
TGCATGCGAAATCCAGGCAC+TGG - chr4_4:49684911-49684930 None:intergenic 55.0%
GCATCTCGCACTACTCGATG+TGG - chr4_4:49685102-49685121 None:intergenic 55.0%
TACCTACGAAGGGGCTGGAA+AGG + chr4_4:49685219-49685238 Msa0685540:three_prime_UTR 55.0%
CCTTATCCTAGTACCGTCCC+GGG - chr4_4:49685273-49685292 None:intergenic 55.0%
TCAGCCTATGCTACTCGACG+TGG - chr4_4:49685323-49685342 None:intergenic 55.0%
!! GCGAAATCCAGGCACTGGTG+GGG - chr4_4:49684906-49684925 None:intergenic 60.0%
AGGACTACCTACGAAGGGGC+TGG + chr4_4:49685214-49685233 Msa0685540:three_prime_UTR 60.0%
AGCCTTTCCAGCCCCTTCGT+AGG - chr4_4:49685224-49685243 None:intergenic 60.0%
TAGAGTGCATCTGCCCGGGA+CGG + chr4_4:49685257-49685276 Msa0685540:three_prime_UTR 60.0%
CCCGGGACGGTACTAGGATA+AGG + chr4_4:49685270-49685289 Msa0685540:three_prime_UTR 60.0%
CATCTGCCCGGGACGGTACT+AGG + chr4_4:49685264-49685283 Msa0685540:three_prime_UTR 65.0%
!! CAGGCACTGGTGGGGCCGTA+CGG - chr4_4:49684898-49684917 None:intergenic 70.0%
CGTACGGCCCCACCAGTGCC+TGG + chr4_4:49684896-49684915 Msa0685540:CDS 75.0%
Chromosome Type Strat End Strand Name
chr4_4 gene 49683540 49687083 49683540 ID=Msa0685540;Name=Msa0685540
chr4_4 mRNA 49683540 49687083 49683540 ID=Msa0685540-mRNA-1;Parent=Msa0685540;Name=Msa0685540-mRNA-1;_AED=0.08;_eAED=0.08;_QI=244|1|1|1|0.6|0.83|6|1736|136
chr4_4 exon 49683540 49683911 49683540 ID=Msa0685540-mRNA-1:exon:12505;Parent=Msa0685540-mRNA-1
chr4_4 exon 49683998 49684071 49683998 ID=Msa0685540-mRNA-1:exon:12506;Parent=Msa0685540-mRNA-1
chr4_4 exon 49684156 49684250 49684156 ID=Msa0685540-mRNA-1:exon:12507;Parent=Msa0685540-mRNA-1
chr4_4 exon 49684830 49686157 49684830 ID=Msa0685540-mRNA-1:exon:12508;Parent=Msa0685540-mRNA-1
chr4_4 exon 49686479 49686580 49686479 ID=Msa0685540-mRNA-1:exon:12509;Parent=Msa0685540-mRNA-1
chr4_4 exon 49686664 49687083 49686664 ID=Msa0685540-mRNA-1:exon:12510;Parent=Msa0685540-mRNA-1
chr4_4 five_prime_UTR 49683540 49683783 49683540 ID=Msa0685540-mRNA-1:five_prime_utr;Parent=Msa0685540-mRNA-1
chr4_4 CDS 49683784 49683911 49683784 ID=Msa0685540-mRNA-1:cds;Parent=Msa0685540-mRNA-1
chr4_4 CDS 49683998 49684071 49683998 ID=Msa0685540-mRNA-1:cds;Parent=Msa0685540-mRNA-1
chr4_4 CDS 49684156 49684250 49684156 ID=Msa0685540-mRNA-1:cds;Parent=Msa0685540-mRNA-1
chr4_4 CDS 49684830 49684943 49684830 ID=Msa0685540-mRNA-1:cds;Parent=Msa0685540-mRNA-1
chr4_4 three_prime_UTR 49684944 49686157 49684944 ID=Msa0685540-mRNA-1:three_prime_utr;Parent=Msa0685540-mRNA-1
chr4_4 three_prime_UTR 49686479 49686580 49686479 ID=Msa0685540-mRNA-1:three_prime_utr;Parent=Msa0685540-mRNA-1
chr4_4 three_prime_UTR 49686664 49687083 49686664 ID=Msa0685540-mRNA-1:three_prime_utr;Parent=Msa0685540-mRNA-1
Gene Sequence

>Msa0685540

ATGTCGATGATTGCTGTCTCCAACTCCAATTCCATTACACTAGGAGTGAGAGTTGCTTCATTCACAACTCCAAATGCTAAATCAAGAGCACTCACTTTTTCTCTGTCTCTGTCTCCATGGAGAAGAAGCTTAGATAGTCTCTCTACTTCCAATGGAACAACTCTCAGACATCTTAATACTCCAATTTCAGCTGTTAATTCAGGTTTAGAAGCATCAATTACAGATTCCAATGATATTTCAGCATTCTTAACAGATGCCACTGTAGTTGCAGAACCAGGAGATGATAATAAGATACAATTAAGAGTGGACTTGACTGGTGTTCAAACACAGAAGGTATTTGACCGGATTCTTATAAACTTAGGCCGTACGGCCCCACCAGTGCCTGGATTTCGCATGCAAAAAGGAGGTTAA

Protein sequence

>Msa0685540

MSMIAVSNSNSITLGVRVASFTTPNAKSRALTFSLSLSPWRRSLDSLSTSNGTTLRHLNTPISAVNSGLEASITDSNDISAFLTDATVVAEPGDDNKIQLRVDLTGVQTQKVFDRILINLGRTAPPVPGFRMQKGG*