AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0096510


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0096510 MtrunA17_Chr1g0150601 98.529 204 3 0 137 340 196 399 5.55e-149 425
Msa0096510 MtrunA17_Chr1g0150601 93.525 139 7 2 1 137 1 139 2.29e-85 263
Msa0096510 MtrunA17_Chr8g0369131 27.000 300 156 9 46 296 81 366 1.55e-27 112
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0096510 AT3G43540.1 53.550 338 99 4 61 340 36 373 2.58e-123 359
Msa0096510 AT3G43540.2 51.485 303 113 6 47 340 24 301 2.59e-103 306
Msa0096510 AT5G47860.1 26.695 236 119 5 81 270 100 327 2.76e-23 100

Find 69 sgRNAs with CRISPR-Local

Find 253 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAGATATCTTATAGAATTAT+TGG 0.159079 1_3:-2223684 Msa0096510:CDS
GCTATTCCTCAACTTACTTA+TGG 0.167683 1_3:-2223823 Msa0096510:CDS
CAATGTCAAACACACATTAT+TGG 0.223972 1_3:-2220450 Msa0096510:intron
TTTCTAGCTATCGAGTAAAT+TGG 0.225245 1_3:+2222018 None:intergenic
ATTGGATTTGCTTCCACTAT+TGG 0.306024 1_3:+2222036 None:intergenic
TGATCAAATGTCACATTATA+AGG 0.308290 1_3:+2223632 None:intergenic
AATGGTTCTGGCAAGGATTC+TGG 0.311836 1_3:+2220025 None:intergenic
TAAATCATGCAATATAGTTT+TGG 0.327894 1_3:-2219947 Msa0096510:three_prime_UTR
AGGTACTTGTCTATGTTTCA+TGG 0.330744 1_3:-2224069 Msa0096510:CDS
CTATTCCTCAACTTACTTAT+GGG 0.335315 1_3:-2223822 Msa0096510:intron
AACTTACCTACTTGCCATCT+TGG 0.343767 1_3:+2220104 None:intergenic
CTTCCACTATTGGCATCATC+TGG 0.351852 1_3:+2222046 None:intergenic
TAAGGAACCGCCTCTGTTGC+TGG 0.371759 1_3:+2222884 None:intergenic
GAACCAGTCACTAATGGTTC+TGG 0.372121 1_3:+2220013 None:intergenic
ACAAATATATTCATCAATCT+TGG 0.381956 1_3:-2219779 Msa0096510:three_prime_UTR
ATTTGTTGATCAGCTGCCTT+TGG 0.398100 1_3:-2221175 Msa0096510:CDS
ACGTTTGAACCAGTCACTAA+TGG 0.412105 1_3:+2220007 None:intergenic
ATGAATTTGATTATAGCTCT+TGG 0.412859 1_3:+2223865 None:intergenic
TTTGATTATAGCTCTTGGTT+TGG 0.424188 1_3:+2223870 None:intergenic
GAGAGTGAATTTGAAATTTG+AGG 0.439754 1_3:+2224107 None:intergenic
AAGCCTCGTGTGGAGTCCTT+TGG 0.443070 1_3:-2220279 Msa0096510:CDS
GGCGGTTCCTTACTTTGAGC+AGG 0.447793 1_3:-2222873 Msa0096510:intron
GTTAATACCTGCTCAAAGTA+AGG 0.449253 1_3:+2222866 None:intergenic
GATTATAGCTCTTGGTTTGG+TGG 0.459125 1_3:+2223873 None:intergenic
TTCTGTTGGATCAATTCTGC+AGG 0.463556 1_3:-2221232 Msa0096510:CDS
ACAACACTTCACAATGGAAA+TGG 0.475322 1_3:-2224133 Msa0096510:exon
CCTCGTGTGGAGTCCTTTGG+TGG 0.479547 1_3:-2220276 Msa0096510:CDS
AGAGCTATAATCAAATTCAT+TGG 0.482982 1_3:-2223862 Msa0096510:CDS
CTCTCCCTTTGAAGAATACC+AGG 0.484709 1_3:-2224089 Msa0096510:CDS
ATTGATGAATATATTTGTGT+TGG 0.488406 1_3:+2219784 None:intergenic
ATAGCTTCTGATATGTATGT+TGG 0.489993 1_3:-2223961 Msa0096510:CDS
CAGCCAGATGATGCCAATAG+TGG 0.500596 1_3:-2222049 Msa0096510:CDS
CTTTGAGCTACAGCATCTGC+TGG 0.508415 1_3:+2220074 None:intergenic
TTCATTGGTGGTGCTTTCGT+TGG 0.512277 1_3:-2223847 Msa0096510:CDS
GCTCTTGGTTTGGTGGAAGT+AGG 0.513990 1_3:+2223880 None:intergenic
AAGATGGTTCTTGATTCTGT+TGG 0.514302 1_3:-2221246 Msa0096510:CDS
GGTTTGGTGGAAGTAGGTGG+TGG 0.514744 1_3:+2223886 None:intergenic
GGCATCATCTGGCTGACAGC+AGG 0.516429 1_3:+2222057 None:intergenic
TCTTATAGAATTATTGGCTA+AGG 0.523554 1_3:-2223678 Msa0096510:CDS
AAGTACCTGGTATTCTTCAA+AGG 0.530570 1_3:+2224084 None:intergenic
ATTTGTTTCATCAATTGTGT+CGG 0.531303 1_3:+2220320 None:intergenic
ATAGAATTATTGGCTAAGGA+AGG 0.531617 1_3:-2223674 Msa0096510:CDS
CTTGGTTTGGTGGAAGTAGG+TGG 0.537073 1_3:+2223883 None:intergenic
ATTTCCATTGTGAAGTGTTG+TGG 0.540234 1_3:+2224135 None:intergenic
CCACATCACACCATGCATCC+AGG 0.548875 1_3:-2220223 Msa0096510:intron
AGTACCTGGTATTCTTCAAA+GGG 0.551616 1_3:+2224085 None:intergenic
TTGCCAGAACCATTAGTGAC+TGG 0.559081 1_3:-2220016 Msa0096510:CDS
TGTTGAATGAATTTGAGTGT+TGG 0.567980 1_3:+2224037 None:intergenic
GCTATAATCAAATTCATTGG+TGG 0.569849 1_3:-2223859 Msa0096510:CDS
CAGCAGATGCTGTAGCTCAA+AGG 0.573497 1_3:-2220073 Msa0096510:CDS
CCTGGATGCATGGTGTGATG+TGG 0.584311 1_3:+2220223 None:intergenic
GCTGCCTTTGGTAATGAATG+AGG 0.584490 1_3:-2221163 Msa0096510:intron
CTCGTGTGGAGTCCTTTGGT+GGG 0.599565 1_3:-2220275 Msa0096510:CDS
TGTAGGAGATGCATGGAAGA+TGG 0.609050 1_3:-2221262 Msa0096510:intron
CAGGAACCAAGATGGCAAGT+AGG 0.610138 1_3:-2220110 Msa0096510:CDS
ACTGAAATCAGGAACCAAGA+TGG 0.615679 1_3:-2220118 Msa0096510:intron
CAATACCCATAAGTAAGTTG+AGG 0.622732 1_3:+2223817 None:intergenic
AGAAACACTCAAGCCTCGTG+TGG 0.629689 1_3:-2220289 Msa0096510:CDS
AGTCACTAATGGTTCTGGCA+AGG 0.630771 1_3:+2220018 None:intergenic
AATTCTGCAGGAAAGCGAGA+AGG 0.631851 1_3:-2221220 Msa0096510:CDS
CAACGTGTGTAGGAGATGCA+TGG 0.637363 1_3:-2221269 Msa0096510:intron
CTTTCCACAACACTTCACAA+TGG 0.638101 1_3:-2224139 Msa0096510:exon
CATACCTCATTCATTACCAA+AGG 0.639421 1_3:+2221159 None:intergenic
CAACAACAGACCAGCAACAG+AGG 0.640280 1_3:-2222894 Msa0096510:CDS
CCACCAAAGGACTCCACACG+AGG 0.646706 1_3:+2220276 None:intergenic
TCGATAGCTAGAAATGCACC+AGG 0.665256 1_3:-2222009 Msa0096510:intron
ATGAAACATAGACAAGTACC+TGG 0.672713 1_3:+2224071 None:intergenic
TCTCTCTGTCAGGTTACACA+AGG 0.683611 1_3:-2220530 Msa0096510:intron
CAACAGACCAGCAACAGAGG+CGG 0.696154 1_3:-2222891 Msa0096510:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTACATTAAAATAAACAAAA+GGG + chr1_3:2220201-2220220 None:intergenic 10.0%
!! TTTACATTAAAATAAACAAA+AGG + chr1_3:2220202-2220221 None:intergenic 10.0%
!!! CTATTTTATAAAATTATCAT+CGG + chr1_3:2223206-2223225 None:intergenic 10.0%
!! TAGATATCTTATAGAATTAT+TGG - chr1_3:2220292-2220311 Msa0096510:CDS 15.0%
!! GATTATAAAACTTTATAATC+TGG - chr1_3:2220891-2220910 Msa0096510:intron 15.0%
!!! AAAGTTAAAATTTAGTTTGA+AGG - chr1_3:2221288-2221307 Msa0096510:intron 15.0%
!!! AAACAATGTTTTATACTTTT+AGG + chr1_3:2221331-2221350 None:intergenic 15.0%
!!! TAAAAGTATAAAACATTGTT+TGG - chr1_3:2221330-2221349 Msa0096510:intron 15.0%
!!! TTTTCTTTTTCTTTTTTTTG+AGG - chr1_3:2222094-2222113 Msa0096510:intron 15.0%
!!! TTTCTTTTTCTTTTTTTTGA+GGG - chr1_3:2222095-2222114 Msa0096510:intron 15.0%
!!! TTCAATAATAACTAGTATTT+TGG - chr1_3:2222880-2222899 Msa0096510:CDS 15.0%
!! AATGAAATGAAATGATTTAT+AGG + chr1_3:2223798-2223817 None:intergenic 15.0%
!!! AAGTTTGATTTTTTTCATGT+TGG - chr1_3:2220220-2220239 Msa0096510:intron 20.0%
!!! TCATTTTCTCAAATTATCAT+TGG - chr1_3:2220611-2220630 Msa0096510:intron 20.0%
!! TATCTATCTATGAACAAAAA+AGG - chr1_3:2220847-2220866 Msa0096510:intron 20.0%
!!! TGTTCGAATGTTTTAATTTA+TGG - chr1_3:2220932-2220951 Msa0096510:intron 20.0%
!!! TATCTAAGATTCTTTAGTAT+AGG - chr1_3:2221168-2221187 Msa0096510:CDS 20.0%
!!! ATCTAAGATTCTTTAGTATA+GGG - chr1_3:2221169-2221188 Msa0096510:CDS 20.0%
!! AAAAATCAATCACTCTATTA+AGG + chr1_3:2221197-2221216 None:intergenic 20.0%
!! TTTCATAACAAAACTTTATG+CGG + chr1_3:2221271-2221290 None:intergenic 20.0%
!!! TTAAAATTTAGTTTGAAGGA+TGG - chr1_3:2221292-2221311 Msa0096510:intron 20.0%
!! TGTGTAAATATATATTATCC+AGG + chr1_3:2221384-2221403 None:intergenic 20.0%
!! TTTACACAAAGTAATTAAAG+TGG - chr1_3:2221396-2221415 Msa0096510:intron 20.0%
!! AAAAATAATAAAGCACATTC+AGG + chr1_3:2221484-2221503 None:intergenic 20.0%
!! TCAATTAGTATAAGCATTAT+CGG - chr1_3:2221631-2221650 Msa0096510:intron 20.0%
!!! TTCTTTTTCTTTTTTTTGAG+GGG - chr1_3:2222096-2222115 Msa0096510:intron 20.0%
!! CTATTGTTTGAATAAATTAG+AGG - chr1_3:2222361-2222380 Msa0096510:intron 20.0%
!! TCTCATTAAGAATTACTAAT+AGG + chr1_3:2222560-2222579 None:intergenic 20.0%
!! TATTAGTAATTCTTAATGAG+AGG - chr1_3:2222559-2222578 Msa0096510:intron 20.0%
!! AAAGTAAGTTATGAGATATA+GGG + chr1_3:2223563-2223582 None:intergenic 20.0%
!! AAAAGTAAGTTATGAGATAT+AGG + chr1_3:2223564-2223583 None:intergenic 20.0%
!! AAATGAAATGATTTATAGGA+TGG + chr1_3:2223794-2223813 None:intergenic 20.0%
!!! TAAATCATGCAATATAGTTT+TGG - chr1_3:2224029-2224048 Msa0096510:CDS 20.0%
!!! GTATTTATTAGCCTTAATAA+TGG + chr1_3:2224132-2224151 None:intergenic 20.0%
!! TAAGGCTAATAAATACTTAT+TGG - chr1_3:2224136-2224155 Msa0096510:exon 20.0%
!! CTAATAAATACTTATTGGAT+TGG - chr1_3:2224141-2224160 Msa0096510:exon 20.0%
!! ATTGATGAATATATTTGTGT+TGG + chr1_3:2224195-2224214 None:intergenic 20.0%
!! ACAAATATATTCATCAATCT+TGG - chr1_3:2224197-2224216 Msa0096510:five_prime_UTR 20.0%
! ATGAATTTGATTATAGCTCT+TGG + chr1_3:2220114-2220133 None:intergenic 25.0%
! AGAGCTATAATCAAATTCAT+TGG - chr1_3:2220114-2220133 Msa0096510:intron 25.0%
!! TCTTATAGAATTATTGGCTA+AGG - chr1_3:2220298-2220317 Msa0096510:CDS 25.0%
! TGATCAAATGTCACATTATA+AGG + chr1_3:2220347-2220366 None:intergenic 25.0%
! CTAAATATAACCACATATAC+TGG + chr1_3:2220586-2220605 None:intergenic 25.0%
! CTTGTAGTTATATCAATTCA+AGG - chr1_3:2221005-2221024 Msa0096510:intron 25.0%
!!! AATAGAGTGATTGATTTTTG+TGG - chr1_3:2221198-2221217 Msa0096510:CDS 25.0%
! AAAGTAATTAAAGTGGTGAA+TGG - chr1_3:2221403-2221422 Msa0096510:intron 25.0%
!! ACATATTCATAACCAGTTTT+TGG + chr1_3:2221451-2221470 None:intergenic 25.0%
! AAAACTGGTTATGAATATGT+TGG - chr1_3:2221451-2221470 Msa0096510:intron 25.0%
! TGTATATCTGTGCAAATAAA+TGG - chr1_3:2221538-2221557 Msa0096510:intron 25.0%
! GTATATCTGTGCAAATAAAT+GGG - chr1_3:2221539-2221558 Msa0096510:intron 25.0%
! GCTTTCTTAAGCATATTTAT+TGG + chr1_3:2221568-2221587 None:intergenic 25.0%
!!! TAAACTTTTCAGTAAGTTGA+TGG + chr1_3:2221661-2221680 None:intergenic 25.0%
!! CTTCCTGACTTAATTTTATA+TGG - chr1_3:2221789-2221808 Msa0096510:intron 25.0%
! GTATGAAGATGAATGATATA+AGG + chr1_3:2221815-2221834 None:intergenic 25.0%
!!! CATTTTTTGAATGTACAGTT+TGG - chr1_3:2222007-2222026 Msa0096510:intron 25.0%
! AATCTCTAAATTCACTACAT+AGG + chr1_3:2222222-2222241 None:intergenic 25.0%
! TTAAAATCAGTTAATGCGAT+AGG - chr1_3:2222301-2222320 Msa0096510:intron 25.0%
! TGTTTGAATAAATTAGAGGA+AGG - chr1_3:2222365-2222384 Msa0096510:intron 25.0%
! CATTAAGAATTACTAATAGG+AGG + chr1_3:2222557-2222576 None:intergenic 25.0%
! CATTTCAGAGATTAACTATA+AGG - chr1_3:2222641-2222660 Msa0096510:intron 25.0%
!!! TATGTGTTAACTGTTGATTT+TGG - chr1_3:2222836-2222855 Msa0096510:intron 25.0%
! AAGGGATTATAAACTTCAAA+TGG + chr1_3:2223085-2223104 None:intergenic 25.0%
!! TTTGAAGTTTATAATCCCTT+AGG - chr1_3:2223085-2223104 Msa0096510:intron 25.0%
!! CAGTAATTTGTAAAAAGAGT+GGG + chr1_3:2223372-2223391 None:intergenic 25.0%
!!! CATAACTTACTTTTGAAAGA+CGG - chr1_3:2223570-2223589 Msa0096510:intron 25.0%
! ATTTGTTTCATCAATTGTGT+CGG + chr1_3:2223659-2223678 None:intergenic 25.0%
! TAAACCAACTACCATTATTA+AGG - chr1_3:2224118-2224137 Msa0096510:CDS 25.0%
! GAGAGTGAATTTGAAATTTG+AGG + chr1_3:2219872-2219891 None:intergenic 30.0%
TGTTGAATGAATTTGAGTGT+TGG + chr1_3:2219942-2219961 None:intergenic 30.0%
ATAGCTTCTGATATGTATGT+TGG - chr1_3:2220015-2220034 Msa0096510:CDS 30.0%
TTTGATTATAGCTCTTGGTT+TGG + chr1_3:2220109-2220128 None:intergenic 30.0%
GCTATAATCAAATTCATTGG+TGG - chr1_3:2220117-2220136 Msa0096510:intron 30.0%
CTATTCCTCAACTTACTTAT+GGG - chr1_3:2220154-2220173 Msa0096510:intron 30.0%
! ATAGAATTATTGGCTAAGGA+AGG - chr1_3:2220302-2220321 Msa0096510:CDS 30.0%
TGACAAGTTTCATTCTTGTT+TGG - chr1_3:2220391-2220410 Msa0096510:intron 30.0%
TAGTTTAGTACCAATCTTAC+TGG - chr1_3:2220685-2220704 Msa0096510:intron 30.0%
TACCAATCTTACTGGAATTA+AGG - chr1_3:2220693-2220712 Msa0096510:intron 30.0%
TACCTTAATTCCAGTAAGAT+TGG + chr1_3:2220698-2220717 None:intergenic 30.0%
! TTGTTTTCAATTCGTAGCAA+TGG - chr1_3:2220735-2220754 Msa0096510:intron 30.0%
!! ATTTTCTGAGAAACTACCTA+AGG - chr1_3:2220788-2220807 Msa0096510:intron 30.0%
CAGAAAAATAACCAAACCTT+AGG + chr1_3:2220807-2220826 None:intergenic 30.0%
!!! CTAAGGTTTGGTTATTTTTC+TGG - chr1_3:2220805-2220824 Msa0096510:intron 30.0%
! AAAAGGCTTTTATTGAGACA+TGG - chr1_3:2220864-2220883 Msa0096510:intron 30.0%
ATTCAAGGAATGTGATGAAA+AGG - chr1_3:2221020-2221039 Msa0096510:intron 30.0%
! GAAAAGGTATGTATCTCTTA+TGG - chr1_3:2221036-2221055 Msa0096510:intron 30.0%
! GATTTTTGTGGTTGTGATTA+AGG - chr1_3:2221210-2221229 Msa0096510:CDS 30.0%
! TTGACATTTTGTGTTTAACC+TGG - chr1_3:2221363-2221382 Msa0096510:intron 30.0%
ATTGCATCTGCATGTATAAA+TGG + chr1_3:2221606-2221625 None:intergenic 30.0%
! ACATTAAATTTTGCTGCTGA+TGG - chr1_3:2221703-2221722 Msa0096510:intron 30.0%
AGGCCATATAAAATTAAGTC+AGG + chr1_3:2221795-2221814 None:intergenic 30.0%
!! GTTTTGAATCACAATTGACA+CGG + chr1_3:2221873-2221892 None:intergenic 30.0%
!! TTTCTAGCTATCGAGTAAAT+TGG + chr1_3:2221961-2221980 None:intergenic 30.0%
TTCAAAAAATGTGCAATCTC+AGG + chr1_3:2221998-2222017 None:intergenic 30.0%
! TACTGATGAAGTTTTCCAAA+AGG - chr1_3:2222063-2222082 Msa0096510:CDS 30.0%
! AAGAAAAGAACACTTCCTTT+TGG + chr1_3:2222081-2222100 None:intergenic 30.0%
!!! TTCTTTTTTTTGAGGGGAAA+AGG - chr1_3:2222102-2222121 Msa0096510:intron 30.0%
CACTACATAGGAAATATAAC+AGG + chr1_3:2222210-2222229 None:intergenic 30.0%
CAGAATTACATTATTAGACC+AGG + chr1_3:2222278-2222297 None:intergenic 30.0%
AACAATATGTCAGAGAGATT+TGG - chr1_3:2222471-2222490 Msa0096510:intron 30.0%
!!! TTGCTGTTGGTTTTTTCTAT+AGG - chr1_3:2222910-2222929 Msa0096510:CDS 30.0%
!!! GCTTTTATAGATTAGCCTAA+GGG + chr1_3:2223103-2223122 None:intergenic 30.0%
!!! AGCTTTTATAGATTAGCCTA+AGG + chr1_3:2223104-2223123 None:intergenic 30.0%
AAAGCTTATGATGATCTTTG+TGG - chr1_3:2223118-2223137 Msa0096510:intron 30.0%
TCATAGATCATAATAGACCA+TGG + chr1_3:2223144-2223163 None:intergenic 30.0%
ATTGAATGTAACACATGTGT+TGG - chr1_3:2223231-2223250 Msa0096510:intron 30.0%
! CCAGTAATTTGTAAAAAGAG+TGG + chr1_3:2223373-2223392 None:intergenic 30.0%
! CCACTCTTTTTACAAATTAC+TGG - chr1_3:2223370-2223389 Msa0096510:intron 30.0%
CAATGTCAAACACACATTAT+TGG - chr1_3:2223526-2223545 Msa0096510:intron 30.0%
! GTCTTTCTTTTTGTCTCTTA+AGG - chr1_3:2223621-2223640 Msa0096510:CDS 30.0%
ATAGAAAAAGTAGGATTGAG+TGG - chr1_3:2223727-2223746 Msa0096510:intron 30.0%
!! TTAGCCTTAATAATGGTAGT+TGG + chr1_3:2224125-2224144 None:intergenic 30.0%
!! ATTTCCATTGTGAAGTGTTG+TGG + chr1_3:2219844-2219863 None:intergenic 35.0%
ACAACACTTCACAATGGAAA+TGG - chr1_3:2219843-2219862 Msa0096510:intron 35.0%
AGTACCTGGTATTCTTCAAA+GGG + chr1_3:2219894-2219913 None:intergenic 35.0%
AAGTACCTGGTATTCTTCAA+AGG + chr1_3:2219895-2219914 None:intergenic 35.0%
ATGAAACATAGACAAGTACC+TGG + chr1_3:2219908-2219927 None:intergenic 35.0%
AGGTACTTGTCTATGTTTCA+TGG - chr1_3:2219907-2219926 Msa0096510:three_prime_UTR 35.0%
GCTATTCCTCAACTTACTTA+TGG - chr1_3:2220153-2220172 Msa0096510:intron 35.0%
CAATACCCATAAGTAAGTTG+AGG + chr1_3:2220162-2220181 None:intergenic 35.0%
!!! TAAGGAAGGTTTTGTTGTTG+TGG - chr1_3:2220316-2220335 Msa0096510:CDS 35.0%
CTATGACCAACAGAGAAAAT+AGG + chr1_3:2220479-2220498 None:intergenic 35.0%
! CTATTTTCTCTGTTGGTCAT+AGG - chr1_3:2220477-2220496 Msa0096510:CDS 35.0%
CGAAATATCAATGTCGTGTT+TGG - chr1_3:2220637-2220656 Msa0096510:intron 35.0%
AGGTATGTATCTCTTATGGA+AGG - chr1_3:2221040-2221059 Msa0096510:intron 35.0%
GTTAATACCTGCTCAAAGTA+AGG + chr1_3:2221113-2221132 None:intergenic 35.0%
ATTAAAGTGGTGAATGGTGA+TGG - chr1_3:2221409-2221428 Msa0096510:intron 35.0%
AATCTAAGCATGCCAAAAAC+TGG - chr1_3:2221436-2221455 Msa0096510:intron 35.0%
TACTGGACAGTTAGAGTAAA+GGG + chr1_3:2221741-2221760 None:intergenic 35.0%
! AGGAAGCATGTTTATTTGAG+TGG + chr1_3:2221775-2221794 None:intergenic 35.0%
! ATTGGATTTGCTTCCACTAT+TGG + chr1_3:2221943-2221962 None:intergenic 35.0%
CATAGGAAATATAACAGGAG+TGG + chr1_3:2222205-2222224 None:intergenic 35.0%
! TGTTCTAAATTCAGAAGTCC+TGG - chr1_3:2222257-2222276 Msa0096510:intron 35.0%
!! ACTGACTTTGGTCAGTTTTA+TGG + chr1_3:2222515-2222534 None:intergenic 35.0%
!! AAAGTCAGTTTTGACCTTCT+CGG - chr1_3:2222526-2222545 Msa0096510:intron 35.0%
AGAATTACTAATAGGAGGAG+AGG + chr1_3:2222552-2222571 None:intergenic 35.0%
CACATTCTTGTGGAATTCAT+TGG - chr1_3:2222587-2222606 Msa0096510:intron 35.0%
AAGATGGTTCTTGATTCTGT+TGG - chr1_3:2222730-2222749 Msa0096510:intron 35.0%
CATACCTCATTCATTACCAA+AGG + chr1_3:2222820-2222839 None:intergenic 35.0%
! TTTTGGTCAGATATTGCTGT+TGG - chr1_3:2222897-2222916 Msa0096510:CDS 35.0%
GGCAAATCTTAGTAAGTTTG+TGG - chr1_3:2222931-2222950 Msa0096510:intron 35.0%
!! TTAGTTTCTGAGATCAAACC+CGG - chr1_3:2222959-2222978 Msa0096510:intron 35.0%
!!! ACAATGAAGGAGTTTTAAGC+CGG + chr1_3:2222990-2223009 None:intergenic 35.0%
TAACAATATTTGTCCCACGA+AGG + chr1_3:2223036-2223055 None:intergenic 35.0%
! TGTAACACATGTGTTGGTAA+TGG - chr1_3:2223237-2223256 Msa0096510:intron 35.0%
TATATATCTCTCTCTCTGTC+AGG - chr1_3:2223436-2223455 Msa0096510:intron 35.0%
! AAGCAATCACGATTTTCAGA+TGG + chr1_3:2223494-2223513 None:intergenic 35.0%
! TTTTTCTATTGTCCCACCAA+AGG + chr1_3:2223716-2223735 None:intergenic 35.0%
!! GTTGCTTCTTTTTCACTGAT+TGG - chr1_3:2223828-2223847 Msa0096510:CDS 35.0%
!! TTTTGAGGATTGAAGTGCTA+GGG - chr1_3:2223991-2224010 Msa0096510:CDS 35.0%
CTTTCCACAACACTTCACAA+TGG - chr1_3:2219837-2219856 Msa0096510:intron 40.0%
!! GATTATAGCTCTTGGTTTGG+TGG + chr1_3:2220106-2220125 None:intergenic 40.0%
! GGTCTTCCTATTTTCTCTGT+TGG - chr1_3:2220470-2220489 Msa0096510:CDS 40.0%
! GTACTGACACTTCAGATTCA+AGG - chr1_3:2220514-2220533 Msa0096510:CDS 40.0%
CTTCAGATTCAAGGTGTATC+CGG - chr1_3:2220523-2220542 Msa0096510:intron 40.0%
CACATATACTGGTGTCTTGT+CGG + chr1_3:2220575-2220594 None:intergenic 40.0%
CTGAGAAACTACCTAAGGTT+TGG - chr1_3:2220793-2220812 Msa0096510:intron 40.0%
!!! TGGTTATTTTTCTGGCTGCT+AGG - chr1_3:2220813-2220832 Msa0096510:intron 40.0%
!!! GGTTATTTTTCTGGCTGCTA+GGG - chr1_3:2220814-2220833 Msa0096510:intron 40.0%
GCAAGGCATATAGAGTCTAT+TGG + chr1_3:2221242-2221261 None:intergenic 40.0%
ACTGGACAGTTAGAGTAAAG+GGG + chr1_3:2221740-2221759 None:intergenic 40.0%
GTACTGGACAGTTAGAGTAA+AGG + chr1_3:2221742-2221761 None:intergenic 40.0%
! AGGAGTGGTAATGAATGTGT+AGG + chr1_3:2222190-2222209 None:intergenic 40.0%
! AGATACCAGTTCTAGCAGAA+TGG + chr1_3:2222343-2222362 None:intergenic 40.0%
! GAGAAGGTCAAAACTGACTT+TGG + chr1_3:2222527-2222546 None:intergenic 40.0%
AGAGGTCTAACACATTCTTG+TGG - chr1_3:2222577-2222596 Msa0096510:intron 40.0%
TTCTGTTGGATCAATTCTGC+AGG - chr1_3:2222744-2222763 Msa0096510:intron 40.0%
! ATTTGTTGATCAGCTGCCTT+TGG - chr1_3:2222801-2222820 Msa0096510:intron 40.0%
!! TAGTTTCTGAGATCAAACCC+GGG - chr1_3:2222960-2222979 Msa0096510:intron 40.0%
TATGATGATCTTTGTGGCCA+TGG - chr1_3:2223124-2223143 Msa0096510:intron 40.0%
TCTAAGTGACACCTAGACTT+CGG + chr1_3:2223283-2223302 None:intergenic 40.0%
TTCCTTGCAAGACGTATGTT+GGG + chr1_3:2223327-2223346 None:intergenic 40.0%
TTTCCTTGCAAGACGTATGT+TGG + chr1_3:2223328-2223347 None:intergenic 40.0%
! TCACGATTTTCAGATGGTGT+TGG + chr1_3:2223488-2223507 None:intergenic 40.0%
!! TTTTGAAAGACGGCTAGCAT+TGG - chr1_3:2223580-2223599 Msa0096510:intron 40.0%
GGTGGGACAATAGAAAAAGT+AGG - chr1_3:2223718-2223737 Msa0096510:intron 40.0%
! AGAAGTTTTACCTGGATGCA+TGG + chr1_3:2223766-2223785 None:intergenic 40.0%
!! GCTTCTTTTTCACTGATTGG+TGG - chr1_3:2223831-2223850 Msa0096510:CDS 40.0%
! TTGGTGGTTACACTGAAATC+AGG - chr1_3:2223847-2223866 Msa0096510:CDS 40.0%
ACTGAAATCAGGAACCAAGA+TGG - chr1_3:2223858-2223877 Msa0096510:CDS 40.0%
AACTTACCTACTTGCCATCT+TGG + chr1_3:2223875-2223894 None:intergenic 40.0%
ACGTTTGAACCAGTCACTAA+TGG + chr1_3:2223972-2223991 None:intergenic 40.0%
!! TGACTGGTTCAAACGTTTTG+AGG - chr1_3:2223976-2223995 Msa0096510:CDS 40.0%
!!! GTTTTGAGGATTGAAGTGCT+AGG - chr1_3:2223990-2224009 Msa0096510:CDS 40.0%
! CTCTCCCTTTGAAGAATACC+AGG - chr1_3:2219887-2219906 Msa0096510:three_prime_UTR 45.0%
!! TTCATTGGTGGTGCTTTCGT+TGG - chr1_3:2220129-2220148 Msa0096510:intron 45.0%
!!! GGAAGGTTTTGTTGTTGTGG+TGG - chr1_3:2220319-2220338 Msa0096510:CDS 45.0%
TTGGATACACTGCTCACATC+TGG - chr1_3:2220410-2220429 Msa0096510:intron 45.0%
TGGATACACTGCTCACATCT+GGG - chr1_3:2220411-2220430 Msa0096510:intron 45.0%
GCAGGTGACAAATTGGATTG+AGG + chr1_3:2220440-2220459 None:intergenic 45.0%
AAGCTGAGCAGGTGACAAAT+TGG + chr1_3:2220447-2220466 None:intergenic 45.0%
AATTTGTCACCTGCTCAGCT+TGG - chr1_3:2220446-2220465 Msa0096510:intron 45.0%
CGACAAGACACCAGTATATG+TGG - chr1_3:2220573-2220592 Msa0096510:intron 45.0%
GCACTTCTTCAAGTACTCAC+AGG - chr1_3:2220759-2220778 Msa0096510:intron 45.0%
ACAAAACTTTATGCGGCGAC+TGG + chr1_3:2221264-2221283 None:intergenic 45.0%
CTTCCACTATTGGCATCATC+TGG + chr1_3:2221933-2221952 None:intergenic 45.0%
TCGATAGCTAGAAATGCACC+AGG - chr1_3:2221967-2221986 Msa0096510:intron 45.0%
CTCAACCATTCTGCTAGAAC+TGG - chr1_3:2222335-2222354 Msa0096510:intron 45.0%
ATGTCATCTGCAACGTGTGT+AGG - chr1_3:2222697-2222716 Msa0096510:intron 45.0%
TGTAGGAGATGCATGGAAGA+TGG - chr1_3:2222714-2222733 Msa0096510:intron 45.0%
AATTCTGCAGGAAAGCGAGA+AGG - chr1_3:2222756-2222775 Msa0096510:intron 45.0%
!! GCTGCCTTTGGTAATGAATG+AGG - chr1_3:2222813-2222832 Msa0096510:intron 45.0%
!!! ATGAAGGAGTTTTAAGCCGG+AGG + chr1_3:2222987-2223006 None:intergenic 45.0%
GGTGAGATAAGGGACAATGA+AGG + chr1_3:2223003-2223022 None:intergenic 45.0%
!! TAGCTCGGTTGGTGAGATAA+GGG + chr1_3:2223013-2223032 None:intergenic 45.0%
TCTCTCTGTCAGGTTACACA+AGG - chr1_3:2223446-2223465 Msa0096510:intron 45.0%
! TGGTGCAGAGAAGTTTTACC+TGG + chr1_3:2223774-2223793 None:intergenic 45.0%
!! AATGGTTCTGGCAAGGATTC+TGG + chr1_3:2223954-2223973 None:intergenic 45.0%
!! AGTCACTAATGGTTCTGGCA+AGG + chr1_3:2223961-2223980 None:intergenic 45.0%
TTGCCAGAACCATTAGTGAC+TGG - chr1_3:2223960-2223979 Msa0096510:CDS 45.0%
GAACCAGTCACTAATGGTTC+TGG + chr1_3:2223966-2223985 None:intergenic 45.0%
!!! TTAAAAATTAAACTTTTTTT+AGG - chr1_3:2219771-2219790 Msa0096510:three_prime_UTR 5.0%
!! CTTGGTTTGGTGGAAGTAGG+TGG + chr1_3:2220096-2220115 None:intergenic 50.0%
!! GCTCTTGGTTTGGTGGAAGT+AGG + chr1_3:2220099-2220118 None:intergenic 50.0%
ATCCGGTGTTCGACACATGT+CGG - chr1_3:2220540-2220559 Msa0096510:intron 50.0%
CAACAACAGACCAGCAACAG+AGG - chr1_3:2221082-2221101 Msa0096510:intron 50.0%
!! GAGTGGTTCTGATGCTGTAC+TGG + chr1_3:2221758-2221777 None:intergenic 50.0%
! TGCATTGATGTCCTGCAGCT+AGG - chr1_3:2221895-2221914 Msa0096510:intron 50.0%
CAGCCAGATGATGCCAATAG+TGG - chr1_3:2221927-2221946 Msa0096510:intron 50.0%
GTGCAATCTCAGGTGATACC+TGG + chr1_3:2221988-2222007 None:intergenic 50.0%
CAACGTGTGTAGGAGATGCA+TGG - chr1_3:2222707-2222726 Msa0096510:intron 50.0%
!! GTAGCTCGGTTGGTGAGATA+AGG + chr1_3:2223014-2223033 None:intergenic 50.0%
TTTGTCCCACGAAGGTAGCT+CGG + chr1_3:2223028-2223047 None:intergenic 50.0%
CTTCGGACTGTAGGTGTCTT+TGG + chr1_3:2223266-2223285 None:intergenic 50.0%
ACACCTACAGTCCGAAGTCT+AGG - chr1_3:2223269-2223288 Msa0096510:intron 50.0%
ACACCTAGACTTCGGACTGT+AGG + chr1_3:2223275-2223294 None:intergenic 50.0%
AGCCCAACATACGTCTTGCA+AGG - chr1_3:2223322-2223341 Msa0096510:intron 50.0%
AGAAACACTCAAGCCTCGTG+TGG - chr1_3:2223687-2223706 Msa0096510:intron 50.0%
CAGGAACCAAGATGGCAAGT+AGG - chr1_3:2223866-2223885 Msa0096510:CDS 50.0%
CTTTGAGCTACAGCATCTGC+TGG + chr1_3:2223905-2223924 None:intergenic 50.0%
CAGCAGATGCTGTAGCTCAA+AGG - chr1_3:2223903-2223922 Msa0096510:CDS 50.0%
!! GGTTTGGTGGAAGTAGGTGG+TGG + chr1_3:2220093-2220112 None:intergenic 55.0%
TTGTCACCTGCTCAGCTTGG+AGG - chr1_3:2220449-2220468 Msa0096510:intron 55.0%
CACCGACATGTGTCGAACAC+CGG + chr1_3:2220545-2220564 None:intergenic 55.0%
CAACAGACCAGCAACAGAGG+CGG - chr1_3:2221085-2221104 Msa0096510:intron 55.0%
TAAGGAACCGCCTCTGTTGC+TGG + chr1_3:2221095-2221114 None:intergenic 55.0%
GGCGGTTCCTTACTTTGAGC+AGG - chr1_3:2221103-2221122 Msa0096510:intron 55.0%
ACTTTATGCGGCGACTGGCA+AGG + chr1_3:2221259-2221278 None:intergenic 55.0%
AATAGGAGGAGAGGCCGAGA+AGG + chr1_3:2222543-2222562 None:intergenic 55.0%
!!! AGTTTTAAGCCGGAGGTCCC+GGG + chr1_3:2222980-2222999 None:intergenic 55.0%
!!! GAGTTTTAAGCCGGAGGTCC+CGG + chr1_3:2222981-2223000 None:intergenic 55.0%
ACCAACCGAGCTACCTTCGT+GGG - chr1_3:2223020-2223039 Msa0096510:intron 55.0%
AAGCCTCGTGTGGAGTCCTT+TGG - chr1_3:2223697-2223716 Msa0096510:intron 55.0%
CTCGTGTGGAGTCCTTTGGT+GGG - chr1_3:2223701-2223720 Msa0096510:intron 55.0%
CCTGGATGCATGGTGTGATG+TGG + chr1_3:2223756-2223775 None:intergenic 55.0%
CCACATCACACCATGCATCC+AGG - chr1_3:2223753-2223772 Msa0096510:intron 55.0%
GGAAGACCTCCAAGCTGAGC+AGG + chr1_3:2220458-2220477 None:intergenic 60.0%
TGACAGCAGGACCTAGCTGC+AGG + chr1_3:2221909-2221928 None:intergenic 60.0%
GGCATCATCTGGCTGACAGC+AGG + chr1_3:2221922-2221941 None:intergenic 60.0%
GAGATCAAACCCGGGACCTC+CGG - chr1_3:2222968-2222987 Msa0096510:intron 60.0%
CACCAACCGAGCTACCTTCG+TGG - chr1_3:2223019-2223038 Msa0096510:intron 60.0%
TCCCACGAAGGTAGCTCGGT+TGG + chr1_3:2223024-2223043 None:intergenic 60.0%
CCACCAAAGGACTCCACACG+AGG + chr1_3:2223703-2223722 None:intergenic 60.0%
CCTCGTGTGGAGTCCTTTGG+TGG - chr1_3:2223700-2223719 Msa0096510:intron 60.0%
Chromosome Type Strat End Strand Name
chr1_3 gene 2219764 2224234 2219764 ID=Msa0096510;Name=Msa0096510
chr1_3 mRNA 2219764 2224234 2219764 ID=Msa0096510-mRNA-1;Parent=Msa0096510;Name=Msa0096510-mRNA-1;_AED=0.15;_eAED=0.15;_QI=92|0.87|0.88|1|0.87|0.77|9|195|340
chr1_3 exon 2219764 2219840 2219764 ID=Msa0096510-mRNA-1:exon:556;Parent=Msa0096510-mRNA-1
chr1_3 exon 2219877 2220129 2219877 ID=Msa0096510-mRNA-1:exon:555;Parent=Msa0096510-mRNA-1
chr1_3 exon 2220224 2220355 2220224 ID=Msa0096510-mRNA-1:exon:554;Parent=Msa0096510-mRNA-1
chr1_3 exon 2220451 2220540 2220451 ID=Msa0096510-mRNA-1:exon:553;Parent=Msa0096510-mRNA-1
chr1_3 exon 2221164 2221279 2221164 ID=Msa0096510-mRNA-1:exon:552;Parent=Msa0096510-mRNA-1
chr1_3 exon 2222010 2222085 2222010 ID=Msa0096510-mRNA-1:exon:551;Parent=Msa0096510-mRNA-1
chr1_3 exon 2222874 2222936 2222874 ID=Msa0096510-mRNA-1:exon:550;Parent=Msa0096510-mRNA-1
chr1_3 exon 2223613 2223703 2223613 ID=Msa0096510-mRNA-1:exon:549;Parent=Msa0096510-mRNA-1
chr1_3 exon 2223823 2224234 2223823 ID=Msa0096510-mRNA-1:exon:548;Parent=Msa0096510-mRNA-1
chr1_3 five_prime_UTR 2224143 2224234 2224143 ID=Msa0096510-mRNA-1:five_prime_utr;Parent=Msa0096510-mRNA-1
chr1_3 CDS 2223823 2224142 2223823 ID=Msa0096510-mRNA-1:cds;Parent=Msa0096510-mRNA-1
chr1_3 CDS 2223613 2223703 2223613 ID=Msa0096510-mRNA-1:cds;Parent=Msa0096510-mRNA-1
chr1_3 CDS 2222874 2222936 2222874 ID=Msa0096510-mRNA-1:cds;Parent=Msa0096510-mRNA-1
chr1_3 CDS 2222010 2222085 2222010 ID=Msa0096510-mRNA-1:cds;Parent=Msa0096510-mRNA-1
chr1_3 CDS 2221164 2221279 2221164 ID=Msa0096510-mRNA-1:cds;Parent=Msa0096510-mRNA-1
chr1_3 CDS 2220451 2220540 2220451 ID=Msa0096510-mRNA-1:cds;Parent=Msa0096510-mRNA-1
chr1_3 CDS 2220224 2220355 2220224 ID=Msa0096510-mRNA-1:cds;Parent=Msa0096510-mRNA-1
chr1_3 CDS 2219995 2220129 2219995 ID=Msa0096510-mRNA-1:cds;Parent=Msa0096510-mRNA-1
chr1_3 three_prime_UTR 2219877 2219994 2219877 ID=Msa0096510-mRNA-1:three_prime_utr;Parent=Msa0096510-mRNA-1
chr1_3 three_prime_UTR 2219764 2219840 2219764 ID=Msa0096510-mRNA-1:three_prime_utr;Parent=Msa0096510-mRNA-1
Gene Sequence

>Msa0096510

ATGGAAATGGCAACCTCAAATTTCAAATTCACTCTCCCTTTGAAGAATACCAGGTACTTGTCTATGTTTCATGGATTGAAACACCAACACTCAAATTCATTCAACAAATGTTTCAAACTTCAATCTTTGTCTACTAGAATAGTGTCAGCTACTACAAACATAGCTTCTGATATGTATGTTGGAAGAAACAATAGTAACAAGATTTACACAAACTTGAATTCTTGTCTTGTGATTCCACCACCTACTTCCACCAAACCAAGAGCTATAATCAAATTCATTGGTGGTGCTTTCGTTGGTGCTATTCCTCAACTTACTTATGGATATCTTATAGAATTATTGGCTAAGGAAGGTTTTGTTGTTGTGGTGGTGCCTTATAATGTGACATTTGATCATTCTCTAGCTGCTAAACAAGCTAATGCTGTAATCGCTTACAACAACAGACCAGCAACAGAGGCGGTTCCTTACTTTGAGCAGCTAGGTCCTGCTGTCAGCCAGATGATGCCAATAGTGGAAGCAAATCCAATTTACTCGATAGCTAGAAATGCACCAGGAGATGCATGGAAGATGGTTCTTGATTCTGTTGGATCAATTCTGCAGGAAAGCGAGAAGGAAGTTCTGAATTCATTAACTAAATTTGTTGATCAGCTGCCTTTGGTAATGAATGAGGTTACACAAGGAGTCTCAGAGTTCAAGCCAACACCATCTGAAAATCGTGATTGCTTTAAAAGTTCGTACAATGTCAAACACACATTATTGGTGCAATTCAATTCCGACACAATTGATGAAACAAATATTCTTGAAGAAACACTCAAGCCTCGTGTGGAGTCCTTTGGTGGGACAATAGAAAAAGTAGGATTGAGTGGTAACCACATCACACCATGCATCCAGGAACCAAGATGGCAAGTAGGTAAGTTGTATACTCCAGCAGATGCTGTAGCTCAAAGGCTTAAATCTTTTTCTTTGAGTGATACCAGAATCCTTGCCAGAACCATTAGTGACTGGTTCAAACGTTTTGAGGATTGA

Protein sequence

>Msa0096510

MEMATSNFKFTLPLKNTRYLSMFHGLKHQHSNSFNKCFKLQSLSTRIVSATTNIASDMYVGRNNSNKIYTNLNSCLVIPPPTSTKPRAIIKFIGGAFVGAIPQLTYGYLIELLAKEGFVVVVVPYNVTFDHSLAAKQANAVIAYNNRPATEAVPYFEQLGPAVSQMMPIVEANPIYSIARNAPGDAWKMVLDSVGSILQESEKEVLNSLTKFVDQLPLVMNEVTQGVSEFKPTPSENRDCFKSSYNVKHTLLVQFNSDTIDETNILEETLKPRVESFGGTIEKVGLSGNHITPCIQEPRWQVGKLYTPADAVAQRLKSFSLSDTRILARTISDWFKRFED*