AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0029000

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0029000 MtrunA17_Chr1g0185641 100.000 114 0 0 1 114 1 114 2.50e-77 223
Msa0029000 MtrunA17_Chr7g0259691 99.130 115 0 1 1 114 1 115 1.95e-75 218
Msa0029000 MtrunA17_Chr8g0383391 28.319 113 76 2 4 113 9 119 4.93e-12 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0029000 AT4G02840.1 94.792 96 5 0 1 96 1 96 1.37e-61 184
Msa0029000 AT3G07590.2 89.796 98 10 0 1 98 1 98 1.77e-60 181
Msa0029000 AT3G07590.1 89.796 98 10 0 1 98 1 98 1.77e-60 181
Msa0029000 AT4G02840.2 85.849 106 5 1 1 96 1 106 2.83e-58 176
Msa0029000 AT3G07590.3 88.060 67 8 0 30 96 4 70 9.80e-39 125
Msa0029000 AT1G20580.1 29.524 105 72 1 4 108 9 111 2.10e-12 59.7

Find 64 sgRNAs with CRISPR-Local

Find 283 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTACTTTGTTGACTTATAA+AGG 0.256946 1_1:-54132021 Msa0029000:three_prime_UTR
GTACCAGCAGTTGGCTTCTT+AGG 0.288686 1_1:+54132374 None:intergenic
ATTGTTCATGGCACCATTAC+AGG 0.313852 1_1:-54135632 Msa0029000:intron
AATGGATCTTATAATCAATT+AGG 0.323511 1_1:-54131932 Msa0029000:three_prime_UTR
TTGGGGCGTGGGCGCGGTCG+AGG 0.328304 1_1:-54132258 Msa0029000:CDS
ATCATCTTAACTAAGGGAAA+TGG 0.333754 1_1:-54131950 Msa0029000:three_prime_UTR
CGTGGGCGCGGTCGAGGGCG+TGG 0.335495 1_1:-54132252 Msa0029000:CDS
CTTGAATCTTGAGACTTTGC+TGG 0.344909 1_1:-54132420 Msa0029000:CDS
TCAGGGAAGCCTTTGGGGCG+TGG 0.359383 1_1:-54132270 Msa0029000:intron
CAGGGAAGCCTTTGGGGCGT+GGG 0.360605 1_1:-54132269 Msa0029000:CDS
GTTGAGACTTGAGTGGTGTT+AGG 0.377675 1_1:+54131995 None:intergenic
AAGCCTTTGGGGCGTGGGCG+CGG 0.383124 1_1:-54132264 Msa0029000:CDS
CGCGGTCGAGGGCGTGGACG+TGG 0.416042 1_1:-54132246 Msa0029000:CDS
ACGAGCTTCATGGCGGCGAT+GGG 0.419657 1_1:+54135811 None:intergenic
GACGAGCTTCATGGCGGCGA+TGG 0.420396 1_1:+54135810 None:intergenic
GTCTCAAGATTCAAGCTGTC+AGG 0.435893 1_1:+54132428 None:intergenic
TTGTGCCATATGGTTGTGTT+GGG 0.447153 1_1:-54132186 Msa0029000:three_prime_UTR
CTGAGATGATCCAGAGTCAC+TGG 0.455517 1_1:+54132485 None:intergenic
TACTAAAACGGTGTCGTACT+CGG 0.455730 1_1:-54135934 Msa0029000:five_prime_UTR
TCGCCGCCATGAAGCTCGTC+AGG 0.455923 1_1:-54135807 Msa0029000:intron
CTGACCCGCTCCTCCCTTCG+TGG 0.458741 1_1:-54135868 Msa0029000:five_prime_UTR
GAGAGACCTGACGAGCTTCA+TGG 0.459293 1_1:+54135801 None:intergenic
CGTGGACGTGGTCGTGGCCG+CGG 0.466756 1_1:-54132234 Msa0029000:CDS
TTCTTGCTGAATAGTTATGC+TGG 0.470656 1_1:-54132125 Msa0029000:three_prime_UTR
TGGGGCGTGGGCGCGGTCGA+GGG 0.476857 1_1:-54132257 Msa0029000:CDS
CGAGGGCGTGGACGTGGTCG+TGG 0.479147 1_1:-54132240 Msa0029000:CDS
TGGTTGTTGAAGTCGAGAAC+CGG 0.488360 1_1:-54135848 Msa0029000:five_prime_UTR
AAGAACGGTACAATTGTTCA+TGG 0.494710 1_1:-54135644 Msa0029000:CDS
TTTGTGCCATATGGTTGTGT+TGG 0.496936 1_1:-54132187 Msa0029000:three_prime_UTR
GGAATTTATGAGTGGTCTTG+TGG 0.505964 1_1:-54132162 Msa0029000:three_prime_UTR
CTCTGGATCATCTCAGTGTG+AGG 0.510476 1_1:-54132478 Msa0029000:CDS
CGACCGCGCCCACGCCCCAA+AGG 0.511469 1_1:+54132261 None:intergenic
GTTCTTGAGCTCGATCGATA+CGG 0.513270 1_1:+54135661 None:intergenic
TGAGACTTTGCTGGTTGAAG+AGG 0.514939 1_1:-54132411 Msa0029000:CDS
GGCTTCTTAGGCTTGACCCT+AGG 0.515024 1_1:+54132386 None:intergenic
GCTGGTTGAAGAGGCACCTA+GGG 0.521169 1_1:-54132402 Msa0029000:CDS
GGGTTAGTACGAACCTGTAA+TGG 0.521741 1_1:+54135619 None:intergenic
TGCCATATGGTTGTGTTGGG+AGG 0.521995 1_1:-54132183 Msa0029000:three_prime_UTR
TTCCTCCCAACACAACCATA+TGG 0.528839 1_1:+54132181 None:intergenic
ACATAAGGGCAATACTAAAA+CGG 0.529212 1_1:-54135946 None:intergenic
AACAGTTAAACTAACACTGA+AGG 0.539350 1_1:-54132516 Msa0029000:CDS
AACAACCACGAAGGGAGGAG+CGG 0.542438 1_1:+54135863 None:intergenic
ACAACCACGAAGGGAGGAGC+GGG 0.547610 1_1:+54135864 None:intergenic
AAGCCTAAGAAGCCAACTGC+TGG 0.548844 1_1:-54132377 Msa0029000:intron
CTCAGTTAAAGAACTCAGAA+AGG 0.555067 1_1:+54132045 None:intergenic
CGAGCTTCATGGCGGCGATG+GGG 0.570180 1_1:+54135812 None:intergenic
GCTTCATGGCGGCGATGGGG+CGG 0.570668 1_1:+54135815 None:intergenic
ACAGTTAAACTAACACTGAA+GGG 0.577307 1_1:-54132515 Msa0029000:CDS
TCTGGATCATCTCAGTGTGA+GGG 0.591054 1_1:-54132477 Msa0029000:CDS
TGCTGGTTGAAGAGGCACCT+AGG 0.593545 1_1:-54132403 Msa0029000:CDS
TAATGTAAAGTACCAGCAGT+TGG 0.601300 1_1:+54132365 None:intergenic
TGTTGGGAGGAATTTATGAG+TGG 0.610163 1_1:-54132170 Msa0029000:three_prime_UTR
ATGGGGCGGAAGATGAGCGC+CGG 0.618208 1_1:+54135829 None:intergenic
GTATCGATCGAGCTCAAGAA+CGG 0.620082 1_1:-54135659 Msa0029000:CDS
CAAGATTCAAGCTGTCAGGA+AGG 0.623754 1_1:+54132432 None:intergenic
CTGGATCATCTCAGTGTGAG+GGG 0.636050 1_1:-54132476 Msa0029000:CDS
CAGTTAAACTAACACTGAAG+GGG 0.636399 1_1:-54132514 Msa0029000:CDS
TCGACTTCAACAACCACGAA+GGG 0.640937 1_1:+54135855 None:intergenic
ACTTCAACAACCACGAAGGG+AGG 0.642524 1_1:+54135858 None:intergenic
TGAGATGATCCAGAGTCACT+GGG 0.651786 1_1:+54132486 None:intergenic
CTCGACTTCAACAACCACGA+AGG 0.657836 1_1:+54135854 None:intergenic
GACTTTAGTTGAGACTTGAG+TGG 0.672289 1_1:+54131988 None:intergenic
AATATGCAATTCAACGACCG+CGG 0.741788 1_1:+54132217 None:intergenic
AGACCTGACGAGCTTCATGG+CGG 0.742738 1_1:+54135804 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATATTTTAAAATTCAAGAA+GGG + chr1_1:54132420-54132439 None:intergenic 10.0%
!!! TAATATTTTAAAATTCAAGA+AGG + chr1_1:54132421-54132440 None:intergenic 10.0%
!! ATAAATTACAAAGTATAAAA+TGG + chr1_1:54132538-54132557 None:intergenic 10.0%
!!! TTTTATACTTTGTAATTTAT+AGG - chr1_1:54132538-54132557 Msa0029000:CDS 10.0%
!!! TATTTTTTAAAACCATTTAT+CGG - chr1_1:54133610-54133629 Msa0029000:intron 10.0%
!!! TTTATTTATTTTAAAGTTCA+AGG - chr1_1:54133959-54133978 Msa0029000:intron 10.0%
!!! ATGAAAAAAATTAATTTGAA+CGG - chr1_1:54134059-54134078 Msa0029000:intron 10.0%
!!! GTTATTGTTATTATTCTTTA+TGG - chr1_1:54132327-54132346 Msa0029000:intron 15.0%
!! ATGAATACAATCTTATTATA+TGG + chr1_1:54133317-54133336 None:intergenic 15.0%
!!! GATAAATGGTTTTAAAAAAT+AGG + chr1_1:54133611-54133630 None:intergenic 15.0%
!!! TTATATAGTTTTACTTTGTT+AGG - chr1_1:54134839-54134858 Msa0029000:intron 15.0%
!! AAAGACTTAGATATATTAAA+TGG + chr1_1:54135168-54135187 None:intergenic 15.0%
!!! ATATCTAAGTCTTTTAATTT+TGG - chr1_1:54135174-54135193 Msa0029000:intron 15.0%
!!! TATCTAAGTCTTTTAATTTT+GGG - chr1_1:54135175-54135194 Msa0029000:intron 15.0%
!!! GAAAGTTTTTCTTTGAAAAT+CGG - chr1_1:54132099-54132118 Msa0029000:three_prime_UTR 20.0%
!!! TTTTTTGTTGTTGTTGAAAT+AGG - chr1_1:54132446-54132465 Msa0029000:CDS 20.0%
!! TTGATTGTAGTACAAAATAT+AGG + chr1_1:54132566-54132585 None:intergenic 20.0%
!! ATATCATATCATAATAGACT+TGG - chr1_1:54132812-54132831 Msa0029000:intron 20.0%
!! TCAAAAATTGTATTGAAAGA+GGG + chr1_1:54133080-54133099 None:intergenic 20.0%
!!! TCTTTCAATACAATTTTTGA+GGG - chr1_1:54133080-54133099 Msa0029000:intron 20.0%
!!! TATGTGTTTTCTTAATTTGT+TGG - chr1_1:54133881-54133900 Msa0029000:intron 20.0%
!! GAATATATAATACTTCTCTT+AGG + chr1_1:54134500-54134519 None:intergenic 20.0%
!!! AACGTTTTAATTTCATTTTC+AGG - chr1_1:54135526-54135545 Msa0029000:intron 20.0%
!!! ACGTTTTAATTTCATTTTCA+GGG - chr1_1:54135527-54135546 Msa0029000:intron 20.0%
!!! TGTTTTTATCATCTTAACTA+AGG - chr1_1:54135857-54135876 Msa0029000:five_prime_UTR 20.0%
!!! GTTTTTATCATCTTAACTAA+GGG - chr1_1:54135858-54135877 Msa0029000:five_prime_UTR 20.0%
!! AATGGATCTTATAATCAATT+AGG - chr1_1:54135882-54135901 Msa0029000:five_prime_UTR 20.0%
!!! TGCACAAGTGTTTTATTTTT+AGG + chr1_1:54131910-54131929 None:intergenic 25.0%
!!! AAACAAGAAGTTGATAGAAA+CGG + chr1_1:54132051-54132070 None:intergenic 25.0%
! GATGTATAATAACAGTAATG+AGG + chr1_1:54132230-54132249 None:intergenic 25.0%
!!! ATTACACTGTCATTTTTCTA+AGG - chr1_1:54132659-54132678 Msa0029000:intron 25.0%
!!! TTACACTGTCATTTTTCTAA+GGG - chr1_1:54132660-54132679 Msa0029000:intron 25.0%
! CAGAACAACATCATATTATA+TGG + chr1_1:54132778-54132797 None:intergenic 25.0%
! GTATTATAACAGCATAGATT+AGG - chr1_1:54133035-54133054 Msa0029000:intron 25.0%
! CTCAAAAATTGTATTGAAAG+AGG + chr1_1:54133081-54133100 None:intergenic 25.0%
!! CTCTTTCAATACAATTTTTG+AGG - chr1_1:54133079-54133098 Msa0029000:intron 25.0%
!!! CTTTCAATACAATTTTTGAG+GGG - chr1_1:54133081-54133100 Msa0029000:intron 25.0%
! TGATATACATCCATTGAATT+AGG + chr1_1:54133271-54133290 None:intergenic 25.0%
! TATCTTGCCAAATTGTAATA+GGG + chr1_1:54133509-54133528 None:intergenic 25.0%
! TAGAATGTTAGAAGAAGAAA+GGG + chr1_1:54133691-54133710 None:intergenic 25.0%
! ATAGAATGTTAGAAGAAGAA+AGG + chr1_1:54133692-54133711 None:intergenic 25.0%
!!! TGTTTTCTTAATTTGTTGGT+TGG - chr1_1:54133885-54133904 Msa0029000:intron 25.0%
! AAATGTATGAATGATTTGAC+TGG + chr1_1:54134629-54134648 None:intergenic 25.0%
! AAAACTAAAATCACGAAAAC+GGG + chr1_1:54134652-54134671 None:intergenic 25.0%
! GAAAACTAAAATCACGAAAA+CGG + chr1_1:54134653-54134672 None:intergenic 25.0%
! CTAAAAAAATGGCTTAGATT+AGG + chr1_1:54134700-54134719 None:intergenic 25.0%
!! TTGGTGTGTTTCTAAAAAAA+TGG + chr1_1:54134711-54134730 None:intergenic 25.0%
! AACAAAGTAAAACTAAATCC+AGG + chr1_1:54134798-54134817 None:intergenic 25.0%
!!! GGATTTAGTTTTACTTTGTT+AGG - chr1_1:54134798-54134817 Msa0029000:intron 25.0%
!! AACGCAATTACTTTCTTTTA+TGG - chr1_1:54134979-54134998 Msa0029000:intron 25.0%
! TGCTTGACTAGTATTATATT+TGG + chr1_1:54135067-54135086 None:intergenic 25.0%
! AGTTAATAGTAAAACCATAC+TGG - chr1_1:54135105-54135124 Msa0029000:intron 25.0%
! AAGCACTTGTTCAAAAATAA+TGG + chr1_1:54135729-54135748 None:intergenic 25.0%
!!! ACTACTTTGTTGACTTATAA+AGG - chr1_1:54135793-54135812 Msa0029000:intron 25.0%
!! TTTTCTTTGAAAATCGGAAC+AGG - chr1_1:54132105-54132124 Msa0029000:three_prime_UTR 30.0%
!!! AAAGGGTTTTTAGGGTTTAA+CGG + chr1_1:54132266-54132285 None:intergenic 30.0%
! AATGTAGTGATTTTCTTCTC+CGG - chr1_1:54132383-54132402 Msa0029000:CDS 30.0%
AAGAAGGGTTTATTAGATTC+CGG + chr1_1:54132405-54132424 None:intergenic 30.0%
! TAGGTTGCTTAGTTTGAATA+TGG - chr1_1:54132465-54132484 Msa0029000:CDS 30.0%
!!! TGTATTTGTGAGTTGGTTTT+TGG + chr1_1:54132857-54132876 None:intergenic 30.0%
ATAAACACGCTCAAAAAACA+TGG + chr1_1:54132964-54132983 None:intergenic 30.0%
CATAATTTCCATTTCTCTCT+TGG + chr1_1:54133227-54133246 None:intergenic 30.0%
GTTTGTTCCCTATTACAATT+TGG - chr1_1:54133499-54133518 Msa0029000:intron 30.0%
GTATCTTGCCAAATTGTAAT+AGG + chr1_1:54133510-54133529 None:intergenic 30.0%
!!! GTTTTAAAAAATAGGCGATG+TGG + chr1_1:54133603-54133622 None:intergenic 30.0%
! ATCAAAATTTTAGACACCTG+TGG + chr1_1:54133638-54133657 None:intergenic 30.0%
! CAACTGTATCTCTTTTACAT+TGG + chr1_1:54133847-54133866 None:intergenic 30.0%
CAATGTAAAAGAGATACAGT+TGG - chr1_1:54133845-54133864 Msa0029000:intron 30.0%
TAAGAAAACACATATCGTCA+TGG + chr1_1:54133875-54133894 None:intergenic 30.0%
ACTTTCTTAGACCATGTAAT+TGG + chr1_1:54134224-54134243 None:intergenic 30.0%
AATTACATGGTCTAAGAAAG+TGG - chr1_1:54134223-54134242 Msa0029000:intron 30.0%
TAAAATGCATAGGCTGATAT+GGG + chr1_1:54134477-54134496 None:intergenic 30.0%
TTCTCTTAGGTAAAATGCAT+AGG + chr1_1:54134487-54134506 None:intergenic 30.0%
AATGGCTTAGATTAGGTAAA+AGG + chr1_1:54134693-54134712 None:intergenic 30.0%
! AATTTTCTATTCAACACACC+TGG - chr1_1:54134777-54134796 Msa0029000:intron 30.0%
! GCAATTACTTTCTTTTATGG+AGG - chr1_1:54134982-54135001 Msa0029000:intron 30.0%
! GGTTTTACTATTAACTGTCA+AGG + chr1_1:54135101-54135120 None:intergenic 30.0%
AACAGTTAAACTAACACTGA+AGG - chr1_1:54135298-54135317 Msa0029000:intron 30.0%
ACAGTTAAACTAACACTGAA+GGG - chr1_1:54135299-54135318 Msa0029000:intron 30.0%
!! ACTTGCTGCAATTTTTATTC+AGG - chr1_1:54135476-54135495 Msa0029000:intron 30.0%
! TTCAGAATTTTTGTGCCATA+TGG - chr1_1:54135618-54135637 Msa0029000:intron 30.0%
ATCATCTTAACTAAGGGAAA+TGG - chr1_1:54135864-54135883 Msa0029000:five_prime_UTR 30.0%
GCTGCATGATAAAAATTGTA+GGG - chr1_1:54135919-54135938 Msa0029000:five_prime_UTR 30.0%
AAGAACGGTACAATTGTTCA+TGG - chr1_1:54132170-54132189 Msa0029000:three_prime_UTR 35.0%
CAGTAATGAGGAAGAAGAAA+GGG + chr1_1:54132218-54132237 None:intergenic 35.0%
ACAGTAATGAGGAAGAAGAA+AGG + chr1_1:54132219-54132238 None:intergenic 35.0%
!!! TTTGTGAGTTGGTTTTTGGA+GGG + chr1_1:54132853-54132872 None:intergenic 35.0%
!!! ATTTGTGAGTTGGTTTTTGG+AGG + chr1_1:54132854-54132873 None:intergenic 35.0%
CTTAGAGTGTATTTGTGAGT+TGG + chr1_1:54132864-54132883 None:intergenic 35.0%
CAACTCACAAATACACTCTA+AGG - chr1_1:54132862-54132881 Msa0029000:intron 35.0%
AGGAAAGGAAAATGGAAGAA+AGG + chr1_1:54133160-54133179 None:intergenic 35.0%
!! GAAAGCTTTGGATAAAAGGA+AGG + chr1_1:54133183-54133202 None:intergenic 35.0%
!! AGAGGAAAGCTTTGGATAAA+AGG + chr1_1:54133187-54133206 None:intergenic 35.0%
TTTCCCTCTTCCTAATTCAA+TGG - chr1_1:54133258-54133277 Msa0029000:intron 35.0%
CATCCATTGAATTAGGAAGA+GGG + chr1_1:54133264-54133283 None:intergenic 35.0%
ACATCCATTGAATTAGGAAG+AGG + chr1_1:54133265-54133284 None:intergenic 35.0%
TAATAGGGAACAAACACCAT+TGG + chr1_1:54133494-54133513 None:intergenic 35.0%
! TGTTGAGTGAGTGTTTTACT+AGG + chr1_1:54133574-54133593 None:intergenic 35.0%
AAGAAAGGGCAAACAACAAA+AGG + chr1_1:54133677-54133696 None:intergenic 35.0%
! TTTGTGGTAGTGAACGAAAA+TGG - chr1_1:54133741-54133760 Msa0029000:intron 35.0%
! TTGTGGTAGTGAACGAAAAT+GGG - chr1_1:54133742-54133761 Msa0029000:intron 35.0%
TTAACAAGAGAGAGCTTGAA+TGG - chr1_1:54133787-54133806 Msa0029000:intron 35.0%
TAACAAGAGAGAGCTTGAAT+GGG - chr1_1:54133788-54133807 Msa0029000:intron 35.0%
! ATGGATTGCTCTATGAAACA+TGG + chr1_1:54134091-54134110 None:intergenic 35.0%
ATAGAGCAATCCATTATGCA+GGG - chr1_1:54134097-54134116 Msa0029000:intron 35.0%
TTGCAGTTTCAGAGAGATAA+TGG - chr1_1:54134171-54134190 Msa0029000:intron 35.0%
TGCAGTTTCAGAGAGATAAT+GGG - chr1_1:54134172-54134191 Msa0029000:intron 35.0%
TCGCTCTACATATTAAACTC+TGG - chr1_1:54134309-54134328 Msa0029000:intron 35.0%
CCAATTGTCCAAAAACAACA+AGG + chr1_1:54134403-54134422 None:intergenic 35.0%
!!! CCTTGTTGTTTTTGGACAAT+TGG - chr1_1:54134400-54134419 Msa0029000:intron 35.0%
! TTTTTGGACAATTGGACTGA+AGG - chr1_1:54134408-54134427 Msa0029000:intron 35.0%
AAAATGCATAGGCTGATATG+GGG + chr1_1:54134476-54134495 None:intergenic 35.0%
GTAAAATGCATAGGCTGATA+TGG + chr1_1:54134478-54134497 None:intergenic 35.0%
TGCAATTCGTGAGATTGTTT+CGG + chr1_1:54134522-54134541 None:intergenic 35.0%
ATCTCACGAATTGCAAGAAA+AGG - chr1_1:54134527-54134546 Msa0029000:intron 35.0%
ACGAATTGCAAGAAAAGGAT+AGG - chr1_1:54134532-54134551 Msa0029000:intron 35.0%
TGAGGTTTAATAAGAAGCTG+GGG + chr1_1:54134740-54134759 None:intergenic 35.0%
GTGAGGTTTAATAAGAAGCT+GGG + chr1_1:54134741-54134760 None:intergenic 35.0%
TGTGAGGTTTAATAAGAAGC+TGG + chr1_1:54134742-54134761 None:intergenic 35.0%
TGCTAAAGTTTGTGATGTGT+TGG - chr1_1:54134914-54134933 Msa0029000:intron 35.0%
GCTAAAGTTTGTGATGTGTT+GGG - chr1_1:54134915-54134934 Msa0029000:intron 35.0%
TGACTAACAATTCATGAAGC+TGG + chr1_1:54134952-54134971 None:intergenic 35.0%
ATAATACTAGTCAAGCACCA+AGG - chr1_1:54135070-54135089 Msa0029000:intron 35.0%
TAACTGTCAAGGAAAATCCT+TGG + chr1_1:54135090-54135109 None:intergenic 35.0%
AATAGTAAAACCATACTGGC+TGG - chr1_1:54135109-54135128 Msa0029000:intron 35.0%
CAGTTAAACTAACACTGAAG+GGG - chr1_1:54135300-54135319 Msa0029000:intron 35.0%
! TAATGTAAAGTACCAGCAGT+TGG + chr1_1:54135452-54135471 None:intergenic 35.0%
! GCTGCAATTTTTATTCAGGT+TGG - chr1_1:54135480-54135499 Msa0029000:intron 35.0%
GTTGAAAACCAAAAACCAGA+TGG + chr1_1:54135509-54135528 None:intergenic 35.0%
TTCTTGCTGAATAGTTATGC+TGG - chr1_1:54135689-54135708 Msa0029000:CDS 35.0%
CTCAGTTAAAGAACTCAGAA+AGG + chr1_1:54135772-54135791 None:intergenic 35.0%
CGCTGCATGATAAAAATTGT+AGG - chr1_1:54135918-54135937 Msa0029000:five_prime_UTR 35.0%
ATTGTTCATGGCACCATTAC+AGG - chr1_1:54132182-54132201 Msa0029000:three_prime_UTR 40.0%
! TTGAGCGCAAAGGGTTTTTA+GGG + chr1_1:54132274-54132293 None:intergenic 40.0%
! TTTGAGCGCAAAGGGTTTTT+AGG + chr1_1:54132275-54132294 None:intergenic 40.0%
AAGCAATCTTTGAGCGCAAA+GGG + chr1_1:54132283-54132302 None:intergenic 40.0%
TAAGCAATCTTTGAGCGCAA+AGG + chr1_1:54132284-54132303 None:intergenic 40.0%
! AACTGATAGTTTGAGTGCTG+AGG - chr1_1:54132504-54132523 Msa0029000:CDS 40.0%
!! ACTGATAGTTTGAGTGCTGA+GGG - chr1_1:54132505-54132524 Msa0029000:CDS 40.0%
!! TGTGTTTGCGAGTTGGATTT+TGG - chr1_1:54132683-54132702 Msa0029000:intron 40.0%
!!! TTGTGAGTTGGTTTTTGGAG+GGG + chr1_1:54132852-54132871 None:intergenic 40.0%
AGTTTGGGGAGAGAAGATTA+GGG - chr1_1:54132920-54132939 Msa0029000:intron 40.0%
AACAAACCCCCTATTCAAGT+TGG - chr1_1:54133123-54133142 Msa0029000:intron 40.0%
! ACAAACCCCCTATTCAAGTT+GGG - chr1_1:54133124-54133143 Msa0029000:intron 40.0%
AAGGAAGGAGGAAAGGAAAA+TGG + chr1_1:54133168-54133187 None:intergenic 40.0%
TGGATAAAAGGAAGGAGGAA+AGG + chr1_1:54133175-54133194 None:intergenic 40.0%
!! AGCTTTGGATAAAAGGAAGG+AGG + chr1_1:54133180-54133199 None:intergenic 40.0%
TCTTGGACACTGTTTGTAAG+GGG + chr1_1:54133210-54133229 None:intergenic 40.0%
CTCTTGGACACTGTTTGTAA+GGG + chr1_1:54133211-54133230 None:intergenic 40.0%
TCTCTTGGACACTGTTTGTA+AGG + chr1_1:54133212-54133231 None:intergenic 40.0%
AACAGTGTCCAAGAGAGAAA+TGG - chr1_1:54133216-54133235 Msa0029000:intron 40.0%
!! AAACCATTTATCGGTTCCAC+AGG - chr1_1:54133619-54133638 Msa0029000:intron 40.0%
ATTCTATGAAGCAAAGCTCG+AGG - chr1_1:54133705-54133724 Msa0029000:intron 40.0%
AGCTTGAATGGGAAAAGAAG+AGG - chr1_1:54133799-54133818 Msa0029000:intron 40.0%
TGAATGGGAAAAGAAGAGGA+TGG - chr1_1:54133803-54133822 Msa0029000:intron 40.0%
CATAGAGCAATCCATTATGC+AGG - chr1_1:54134096-54134115 Msa0029000:intron 40.0%
TAGAGCAATCCATTATGCAG+GGG - chr1_1:54134098-54134117 Msa0029000:intron 40.0%
AATCCATTATGCAGGGGAAA+GGG - chr1_1:54134104-54134123 Msa0029000:intron 40.0%
!! TTCAGAGAGATAATGGGATG+AGG - chr1_1:54134178-54134197 Msa0029000:intron 40.0%
!! TCAGAGAGATAATGGGATGA+GGG - chr1_1:54134179-54134198 Msa0029000:intron 40.0%
TGAACCAGTTGCCAATTACA+TGG - chr1_1:54134210-54134229 Msa0029000:intron 40.0%
TAGACCATGTAATTGGCAAC+TGG + chr1_1:54134217-54134236 None:intergenic 40.0%
ACATGGTCTAAGAAAGTGGT+TGG - chr1_1:54134227-54134246 Msa0029000:intron 40.0%
! TCTGGAGTTTAAGCGTTTCT+TGG - chr1_1:54134327-54134346 Msa0029000:intron 40.0%
CTGGAGTTTAAGCGTTTCTT+GGG - chr1_1:54134328-54134347 Msa0029000:intron 40.0%
!!! GAATCCAGCCTTGTTGTTTT+TGG - chr1_1:54134392-54134411 Msa0029000:intron 40.0%
TTGTCCAAAAACAACAAGGC+TGG + chr1_1:54134399-54134418 None:intergenic 40.0%
AGCGTGTAGTTATGCTTTGA+TGG - chr1_1:54134572-54134591 Msa0029000:intron 40.0%
TCAAAAGCTTAAGCTGTGTG+AGG + chr1_1:54134758-54134777 None:intergenic 40.0%
! CTATAGTTGTGTTGTTCCTG+AGG - chr1_1:54135221-54135240 Msa0029000:intron 40.0%
!! TTGACTTGTTGCTATGCTAC+AGG - chr1_1:54135245-54135264 Msa0029000:intron 40.0%
CTTGAATCTTGAGACTTTGC+TGG - chr1_1:54135394-54135413 Msa0029000:intron 40.0%
!! TTCATTTTCAGGGAAGCCTT+TGG - chr1_1:54135537-54135556 Msa0029000:intron 40.0%
!! TCATTTTCAGGGAAGCCTTT+GGG - chr1_1:54135538-54135557 Msa0029000:intron 40.0%
AATATGCAATTCAACGACCG+CGG + chr1_1:54135600-54135619 None:intergenic 40.0%
TTTGTGCCATATGGTTGTGT+TGG - chr1_1:54135627-54135646 Msa0029000:intron 40.0%
TTGTGCCATATGGTTGTGTT+GGG - chr1_1:54135628-54135647 Msa0029000:intron 40.0%
TGTTGGGAGGAATTTATGAG+TGG - chr1_1:54135644-54135663 Msa0029000:CDS 40.0%
! GGAATTTATGAGTGGTCTTG+TGG - chr1_1:54135652-54135671 Msa0029000:CDS 40.0%
GACTTTAGTTGAGACTTGAG+TGG + chr1_1:54135829-54135848 None:intergenic 40.0%
TCGACTTCAACAACCACGAA+GGG + chr1_1:54131962-54131981 None:intergenic 45.0%
TGGTTGTTGAAGTCGAGAAC+CGG - chr1_1:54131966-54131985 Msa0029000:three_prime_UTR 45.0%
ATAGAAACGGAGAGAGAGAG+AGG + chr1_1:54132038-54132057 None:intergenic 45.0%
GTTCTTGAGCTCGATCGATA+CGG + chr1_1:54132156-54132175 None:intergenic 45.0%
! GTATCGATCGAGCTCAAGAA+CGG - chr1_1:54132155-54132174 Msa0029000:three_prime_UTR 45.0%
! GGGTTAGTACGAACCTGTAA+TGG + chr1_1:54132198-54132217 None:intergenic 45.0%
GCTATTCGTTGTTGCAGAAC+AGG + chr1_1:54132637-54132656 None:intergenic 45.0%
!! GTTTTTGGAGGGGATGACTT+TGG + chr1_1:54132842-54132861 None:intergenic 45.0%
GAGTTTGGGGAGAGAAGATT+AGG - chr1_1:54132919-54132938 Msa0029000:intron 45.0%
GTTTGGGGAGAGAAGATTAG+GGG - chr1_1:54132921-54132940 Msa0029000:intron 45.0%
!! CAAACCCCCTATTCAAGTTG+GGG - chr1_1:54133125-54133144 Msa0029000:intron 45.0%
TTGCCACTCACTCTAAGTTC+AGG - chr1_1:54133457-54133476 Msa0029000:intron 45.0%
AAGCCTGAACTTAGAGTGAG+TGG + chr1_1:54133463-54133482 None:intergenic 45.0%
ACTCACTCTAAGTTCAGGCT+TGG - chr1_1:54133462-54133481 Msa0029000:intron 45.0%
TCAGGCTTGGAATAGTCCAA+TGG - chr1_1:54133475-54133494 Msa0029000:intron 45.0%
ACACCTGTGGAACCGATAAA+TGG + chr1_1:54133625-54133644 None:intergenic 45.0%
! AGAAGAGGATGGTAGTGAGA+TGG - chr1_1:54133814-54133833 Msa0029000:intron 45.0%
CAATCCATTATGCAGGGGAA+AGG - chr1_1:54134103-54134122 Msa0029000:intron 45.0%
!! CAGAGAGATAATGGGATGAG+GGG - chr1_1:54134180-54134199 Msa0029000:intron 45.0%
!! GATAATGGGATGAGGGGAAA+AGG - chr1_1:54134186-54134205 Msa0029000:intron 45.0%
CTGATATGGGGATCAACAAC+TGG + chr1_1:54134464-54134483 None:intergenic 45.0%
TAAGAAGCTGGGGATGAGAT+TGG + chr1_1:54134730-54134749 None:intergenic 45.0%
ATAGCAACAAGTCAAGCCTC+AGG + chr1_1:54135240-54135259 None:intergenic 45.0%
TGAGATGATCCAGAGTCACT+GGG + chr1_1:54135331-54135350 None:intergenic 45.0%
TCTGGATCATCTCAGTGTGA+GGG - chr1_1:54135337-54135356 Msa0029000:intron 45.0%
CAAGATTCAAGCTGTCAGGA+AGG + chr1_1:54135385-54135404 None:intergenic 45.0%
GTCTCAAGATTCAAGCTGTC+AGG + chr1_1:54135389-54135408 None:intergenic 45.0%
! TGAGACTTTGCTGGTTGAAG+AGG - chr1_1:54135403-54135422 Msa0029000:intron 45.0%
!! CATTTTCAGGGAAGCCTTTG+GGG - chr1_1:54135539-54135558 Msa0029000:intron 45.0%
TTCCTCCCAACACAACCATA+TGG + chr1_1:54135636-54135655 None:intergenic 45.0%
GTTGAGACTTGAGTGGTGTT+AGG + chr1_1:54135822-54135841 None:intergenic 45.0%
ACTTCAACAACCACGAAGGG+AGG + chr1_1:54131959-54131978 None:intergenic 50.0%
CTCGACTTCAACAACCACGA+AGG + chr1_1:54131963-54131982 None:intergenic 50.0%
! CTAAGGGTGTGTTTGCGAGT+TGG - chr1_1:54132676-54132695 Msa0029000:intron 50.0%
GCTCTGTTTGCGAGTTCAGA+GGG - chr1_1:54132884-54132903 Msa0029000:intron 50.0%
CTCTGTTTGCGAGTTCAGAG+GGG - chr1_1:54132885-54132904 Msa0029000:intron 50.0%
CCAACCCCAACTTGAATAGG+GGG + chr1_1:54133132-54133151 None:intergenic 50.0%
CCCAACCCCAACTTGAATAG+GGG + chr1_1:54133133-54133152 None:intergenic 50.0%
!! CCCCTATTCAAGTTGGGGTT+GGG - chr1_1:54133130-54133149 Msa0029000:intron 50.0%
CCCCAACCCCAACTTGAATA+GGG + chr1_1:54133134-54133153 None:intergenic 50.0%
!! CCCTATTCAAGTTGGGGTTG+GGG - chr1_1:54133131-54133150 Msa0029000:intron 50.0%
ACCCCAACCCCAACTTGAAT+AGG + chr1_1:54133135-54133154 None:intergenic 50.0%
GTAAGGGGAGAGGAAAGCTT+TGG + chr1_1:54133195-54133214 None:intergenic 50.0%
GACACTGTTTGTAAGGGGAG+AGG + chr1_1:54133205-54133224 None:intergenic 50.0%
CTACCACAAATCGTGAGTCG+CGG + chr1_1:54133731-54133750 None:intergenic 50.0%
GTTTGTGATGTGTTGGGCTC+AGG - chr1_1:54134921-54134940 Msa0029000:intron 50.0%
CTGAGATGATCCAGAGTCAC+TGG + chr1_1:54135332-54135351 None:intergenic 50.0%
CTCTGGATCATCTCAGTGTG+AGG - chr1_1:54135336-54135355 Msa0029000:intron 50.0%
CTGGATCATCTCAGTGTGAG+GGG - chr1_1:54135338-54135357 Msa0029000:intron 50.0%
AAGCCTAAGAAGCCAACTGC+TGG - chr1_1:54135437-54135456 Msa0029000:intron 50.0%
! GTACCAGCAGTTGGCTTCTT+AGG + chr1_1:54135443-54135462 None:intergenic 50.0%
!! TATTCAGGTTGGCTGCCATC+TGG - chr1_1:54135491-54135510 Msa0029000:intron 50.0%
!!! GTTGGCTGCCATCTGGTTTT+TGG - chr1_1:54135498-54135517 Msa0029000:intron 50.0%
TGCCATATGGTTGTGTTGGG+AGG - chr1_1:54135631-54135650 Msa0029000:intron 50.0%
AACAACCACGAAGGGAGGAG+CGG + chr1_1:54131954-54131973 None:intergenic 55.0%
AGACCTGACGAGCTTCATGG+CGG + chr1_1:54132013-54132032 None:intergenic 55.0%
GAGAGACCTGACGAGCTTCA+TGG + chr1_1:54132016-54132035 None:intergenic 55.0%
GGCTCTGTTTGCGAGTTCAG+AGG - chr1_1:54132883-54132902 Msa0029000:intron 55.0%
TGTTTGCGAGTTCAGAGGGG+AGG - chr1_1:54132888-54132907 Msa0029000:intron 55.0%
GTTTGCGAGTTCAGAGGGGA+GGG - chr1_1:54132889-54132908 Msa0029000:intron 55.0%
TTTGCGAGTTCAGAGGGGAG+GGG - chr1_1:54132890-54132909 Msa0029000:intron 55.0%
!! CCCCCTATTCAAGTTGGGGT+TGG - chr1_1:54133129-54133148 Msa0029000:intron 55.0%
CCACCCTTTCCCCTGCATAA+TGG + chr1_1:54134110-54134129 None:intergenic 55.0%
CCATTATGCAGGGGAAAGGG+TGG - chr1_1:54134107-54134126 Msa0029000:intron 55.0%
TTATGCAGGGGAAAGGGTGG+TGG - chr1_1:54134110-54134129 Msa0029000:intron 55.0%
TATGCAGGGGAAAGGGTGGT+GGG - chr1_1:54134111-54134130 Msa0029000:intron 55.0%
TGGGTGAGGTTGAGGGATAG+TGG - chr1_1:54134130-54134149 Msa0029000:intron 55.0%
! GTGAGGTTGAGGGATAGTGG+TGG - chr1_1:54134133-54134152 Msa0029000:intron 55.0%
!! GTTGAGGGATAGTGGTGGAC+TGG - chr1_1:54134138-54134157 Msa0029000:intron 55.0%
!! GGATAGTGGTGGACTGGTGA+CGG - chr1_1:54134144-54134163 Msa0029000:intron 55.0%
GCAACATCTGCCAGCCAGTA+TGG + chr1_1:54135122-54135141 None:intergenic 55.0%
GGGGAAAAACCCAGTGACTC+TGG - chr1_1:54135319-54135338 Msa0029000:intron 55.0%
!! TGCTGGTTGAAGAGGCACCT+AGG - chr1_1:54135411-54135430 Msa0029000:intron 55.0%
!! GCTGGTTGAAGAGGCACCTA+GGG - chr1_1:54135412-54135431 Msa0029000:intron 55.0%
GGCTTCTTAGGCTTGACCCT+AGG + chr1_1:54135431-54135450 None:intergenic 55.0%
ACAACCACGAAGGGAGGAGC+GGG + chr1_1:54131953-54131972 None:intergenic 60.0%
ACGAGCTTCATGGCGGCGAT+GGG + chr1_1:54132006-54132025 None:intergenic 60.0%
GAGTTCAGAGGGGAGGGGAA+GGG - chr1_1:54132895-54132914 Msa0029000:intron 60.0%
GGGAGGGGAAGGGAGAGTTT+GGG - chr1_1:54132905-54132924 Msa0029000:intron 60.0%
GGAGGGGAAGGGAGAGTTTG+GGG - chr1_1:54132906-54132925 Msa0029000:intron 60.0%
AGGCCGCGACTCACGATTTG+TGG - chr1_1:54133725-54133744 Msa0029000:intron 60.0%
!! AAGGGTGGTGGGTGAGGTTG+AGG - chr1_1:54134122-54134141 Msa0029000:intron 60.0%
!! AGGGTGGTGGGTGAGGTTGA+GGG - chr1_1:54134123-54134142 Msa0029000:intron 60.0%
!! TAGTGGTGGACTGGTGACGG+TGG - chr1_1:54134147-54134166 Msa0029000:intron 60.0%
ATGGGGCGGAAGATGAGCGC+CGG + chr1_1:54131988-54132007 None:intergenic 65.0%
CGAGCTTCATGGCGGCGATG+GGG + chr1_1:54132005-54132024 None:intergenic 65.0%
GACGAGCTTCATGGCGGCGA+TGG + chr1_1:54132007-54132026 None:intergenic 65.0%
TCGCCGCCATGAAGCTCGTC+AGG - chr1_1:54132007-54132026 Msa0029000:three_prime_UTR 65.0%
CGAGTTCAGAGGGGAGGGGA+AGG - chr1_1:54132894-54132913 Msa0029000:intron 65.0%
GGGGAGGGGAAGGGAGAGTT+TGG - chr1_1:54132904-54132923 Msa0029000:intron 65.0%
!! AGGGGAAAGGGTGGTGGGTG+AGG - chr1_1:54134116-54134135 Msa0029000:intron 65.0%
!! TCAGGGAAGCCTTTGGGGCG+TGG - chr1_1:54135544-54135563 Msa0029000:intron 65.0%
!! CAGGGAAGCCTTTGGGGCGT+GGG - chr1_1:54135545-54135564 Msa0029000:intron 65.0%
CTGACCCGCTCCTCCCTTCG+TGG - chr1_1:54131946-54131965 Msa0029000:three_prime_UTR 70.0%
GCTTCATGGCGGCGATGGGG+CGG + chr1_1:54132002-54132021 None:intergenic 70.0%
!! AAGCCTTTGGGGCGTGGGCG+CGG - chr1_1:54135550-54135569 Msa0029000:intron 70.0%
! CGAGGGCGTGGACGTGGTCG+TGG - chr1_1:54135574-54135593 Msa0029000:intron 75.0%
CGTGGACGTGGTCGTGGCCG+CGG - chr1_1:54135580-54135599 Msa0029000:intron 75.0%
! CGACCGCGCCCACGCCCCAA+AGG + chr1_1:54135556-54135575 None:intergenic 80.0%
! TTGGGGCGTGGGCGCGGTCG+AGG - chr1_1:54135556-54135575 Msa0029000:intron 80.0%
! TGGGGCGTGGGCGCGGTCGA+GGG - chr1_1:54135557-54135576 Msa0029000:intron 80.0%
!! CGCGGTCGAGGGCGTGGACG+TGG - chr1_1:54135568-54135587 Msa0029000:intron 80.0%
! CGTGGGCGCGGTCGAGGGCG+TGG - chr1_1:54135562-54135581 Msa0029000:intron 85.0%
Chromosome Type Strat End Strand Name
chr1_1 gene 54131882 54135954 54131882 ID=Msa0029000;Name=Msa0029000
chr1_1 mRNA 54131882 54135954 54131882 ID=Msa0029000-mRNA-1;Parent=Msa0029000;Name=Msa0029000-mRNA-1;_AED=0.01;_eAED=0.01;_QI=133|1|1|1|1|1|4|345|114
chr1_1 exon 54131882 54132288 54131882 ID=Msa0029000-mRNA-1:exon:16015;Parent=Msa0029000-mRNA-1
chr1_1 exon 54132378 54132569 54132378 ID=Msa0029000-mRNA-1:exon:16014;Parent=Msa0029000-mRNA-1
chr1_1 exon 54135633 54135709 54135633 ID=Msa0029000-mRNA-1:exon:16013;Parent=Msa0029000-mRNA-1
chr1_1 exon 54135808 54135954 54135808 ID=Msa0029000-mRNA-1:exon:16012;Parent=Msa0029000-mRNA-1
chr1_1 five_prime_UTR 54135822 54135954 54135822 ID=Msa0029000-mRNA-1:five_prime_utr;Parent=Msa0029000-mRNA-1
chr1_1 CDS 54135808 54135821 54135808 ID=Msa0029000-mRNA-1:cds;Parent=Msa0029000-mRNA-1
chr1_1 CDS 54135633 54135709 54135633 ID=Msa0029000-mRNA-1:cds;Parent=Msa0029000-mRNA-1
chr1_1 CDS 54132378 54132569 54132378 ID=Msa0029000-mRNA-1:cds;Parent=Msa0029000-mRNA-1
chr1_1 CDS 54132227 54132288 54132227 ID=Msa0029000-mRNA-1:cds;Parent=Msa0029000-mRNA-1
chr1_1 three_prime_UTR 54131882 54132226 54131882 ID=Msa0029000-mRNA-1:three_prime_utr;Parent=Msa0029000-mRNA-1
Gene Sequence

>Msa0029000

ATGAAGCTCGTCAGGTTTCTGATGAAATTGAACAACGAAACCGTATCGATCGAGCTCAAGAACGGTACAATTGTTCATGGCACCATTACAGGTGTTGATATCAGCATGAACACACATTTGAAAACAGTTAAACTAACACTGAAGGGGAAAAACCCAGTGACTCTGGATCATCTCAGTGTGAGGGGTAACAACATTCGTTATTATATCCTTCCTGACAGCTTGAATCTTGAGACTTTGCTGGTTGAAGAGGCACCTAGGGTCAAGCCTAAGAAGCCAACTGCTGGGAAGCCTTTGGGGCGTGGGCGCGGTCGAGGGCGTGGACGTGGTCGTGGCCGCGGTCGTTGA
Protein sequence

>Msa0029000

MKLVRFLMKLNNETVSIELKNGTIVHGTITGVDISMNTHLKTVKLTLKGKNPVTLDHLSVRGNNIRYYILPDSLNLETLLVEEAPRVKPKKPTAGKPLGRGRGRGRGRGRGRGR*