AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene011748


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011748.t1 MTR_4g095310 100.000 270 0 0 1 270 1 270 0.0 558
MS.gene011748.t1 MTR_5g016150 80.224 268 53 0 1 268 1 268 5.72e-170 472
MS.gene011748.t1 MTR_1g018320 57.430 249 104 2 6 253 8 255 1.01e-107 313
MS.gene011748.t1 MTR_3g045440 40.408 245 144 2 9 252 13 256 3.25e-69 215
MS.gene011748.t1 MTR_6g086560 40.157 254 149 3 9 260 22 274 2.18e-66 208
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011748.t1 AT4G37470 78.810 269 57 0 1 269 1 269 4.62e-166 461
MS.gene011748.t1 AT3G03990 57.661 248 104 1 6 253 8 254 2.86e-108 314
MS.gene011748.t1 AT3G24420 43.548 248 137 3 7 252 13 259 3.02e-76 233

Find 58 sgRNAs with CRISPR-Local

Find 91 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTCACAACGTGAAAGTTT+TGG 0.271854 8.2:+24732166 MS.gene011748:CDS
AGGATTTGAGCAAGAAGATT+TGG 0.309415 8.2:+24733411 MS.gene011748:CDS
CTCGCCGGACGTTGTTATTC+CGG 0.318614 8.2:+24733768 MS.gene011748:CDS
CGCTCAAAATCAAAGTAATC+TGG 0.326618 8.2:-24732323 None:intergenic
CATTCTGTTTCTGCTATGAT+TGG 0.327046 8.2:+24732428 MS.gene011748:CDS
GAGCGTTATTCAACCTTAGA+AGG 0.329474 8.2:+24732341 MS.gene011748:CDS
AATTACAAATCATGGTGTTC+TGG 0.329664 8.2:+24733460 MS.gene011748:CDS
GTTGATTCATGTATCTTTGT+TGG 0.344178 8.2:+24732404 MS.gene011748:CDS
AAATTGTTTGTAACACGCTT+AGG 0.357437 8.2:-24733573 None:intergenic
ATCATAAGCATAACCTTCTA+AGG 0.361019 8.2:-24732354 None:intergenic
TATGAAGGATCTAGCGGTTC+CGG 0.394091 8.2:+24733657 MS.gene011748:CDS
ATAGTTCTAGCTCACGGGTT+TGG 0.396140 8.2:+24732206 MS.gene011748:CDS
AATTGTTTGTAACACGCTTA+GGG 0.419608 8.2:-24733572 None:intergenic
TGGCATCAAATTACAAATCA+TGG 0.445032 8.2:+24733452 MS.gene011748:CDS
AACGACAGGGACTACTTTGG+AGG 0.459003 8.2:+24733391 MS.gene011748:CDS
GGATCTAGCGGTTCCGGTCG+TGG 0.461437 8.2:+24733663 MS.gene011748:CDS
GGATTTGCTCCAATGGCAGT+TGG 0.462285 8.2:+24733481 MS.gene011748:CDS
AGCGGTTCCGGTCGTGGTCG+CGG 0.467057 8.2:+24733669 MS.gene011748:CDS
ATGTCCCCTCCAACTGCCAT+TGG 0.469708 8.2:-24733490 None:intergenic
GGATCAACTATTCGATGCTA+TGG 0.479394 8.2:+24733432 MS.gene011748:CDS
TTGAACGACAGGGACTACTT+TGG 0.492694 8.2:+24733388 MS.gene011748:CDS
GGGGAAGGTATTTGAACGAC+AGG 0.494683 8.2:+24733377 MS.gene011748:intron
TGCTCCAATGGCAGTTGGAG+GGG 0.510556 8.2:+24733486 MS.gene011748:CDS
CCTTCATACTTTGTATAATG+TGG 0.518604 8.2:-24733642 None:intergenic
TACTTTGTATAATGTGGCAT+GGG 0.519899 8.2:-24733636 None:intergenic
AATGGCAGTTGGAGGGGACA+TGG 0.527300 8.2:+24733492 MS.gene011748:CDS
AGATACTCCGCGACCACGAC+CGG 0.529415 8.2:-24733676 None:intergenic
GTGTTCTGGATTTGCTCCAA+TGG 0.532527 8.2:+24733474 MS.gene011748:CDS
GGTTCATAGTTCTAGCTCAC+GGG 0.534969 8.2:+24732201 MS.gene011748:CDS
TTGGCACAGATCAATCTGTA+TGG 0.535156 8.2:+24732225 MS.gene011748:CDS
ATCACCGGAATAACAACGTC+CGG 0.537857 8.2:-24733772 None:intergenic
CCACATTATACAAAGTATGA+AGG 0.538729 8.2:+24733642 MS.gene011748:CDS
TTTGCTCCAATGGCAGTTGG+AGG 0.538790 8.2:+24733484 MS.gene011748:CDS
ATACTTTGTATAATGTGGCA+TGG 0.539342 8.2:-24733637 None:intergenic
CTTTATGACAACATGGGAGC+TGG 0.543266 8.2:+24732290 MS.gene011748:CDS
TTGCTCCAATGGCAGTTGGA+GGG 0.545271 8.2:+24733485 MS.gene011748:CDS
CGAATGTGTTTGAGTATCAC+CGG 0.546328 8.2:-24733787 None:intergenic
CGGTTCATAGTTCTAGCTCA+CGG 0.558590 8.2:+24732200 MS.gene011748:CDS
AACACGCTTAGGGCTATGTC+TGG 0.562881 8.2:-24733562 None:intergenic
ACTCGCTACCAACATGTTGG+TGG 0.576429 8.2:-24733699 None:intergenic
ACACATTCGTCATGATATTG+CGG 0.602861 8.2:+24733801 MS.gene011748:CDS
TTTGCCGCAGTTAAGCTCGC+CGG 0.607162 8.2:+24733753 MS.gene011748:CDS
TGGACTCGCTACCAACATGT+TGG 0.613943 8.2:-24733702 None:intergenic
CATGAGACAAATATTATGCA+TGG 0.615267 8.2:+24733606 MS.gene011748:CDS
TGTCATACTTTATGACAACA+TGG 0.621368 8.2:+24732283 MS.gene011748:CDS
CATCGTGGAGGTTATGTCGA+CGG 0.640034 8.2:+24733723 MS.gene011748:CDS
CGTGGAGGTTATGTCGACGG+AGG 0.645516 8.2:+24733726 MS.gene011748:CDS
CGAAACTCATCTAAGAGATG+AGG 0.649391 8.2:-24732260 None:intergenic
GAGTATCTCCACCAACATGT+TGG 0.654467 8.2:+24733691 MS.gene011748:CDS
ACAAAGTATGAAGGATCTAG+CGG 0.659829 8.2:+24733651 MS.gene011748:CDS
GTGGAGGTTATGTCGACGGA+GGG 0.661408 8.2:+24733727 MS.gene011748:CDS
GGGAAGGTATTTGAACGACA+GGG 0.664911 8.2:+24733378 MS.gene011748:intron
GTCATACTTTATGACAACAT+GGG 0.668133 8.2:+24732284 MS.gene011748:CDS
CATCTAAGAGATGAGGTACG+AGG 0.688542 8.2:-24732253 None:intergenic
TGTTGGTAGCGAGTCCATCG+TGG 0.709388 8.2:+24733708 MS.gene011748:CDS
ACGTCCGGCGAGCTTAACTG+CGG 0.714820 8.2:-24733757 None:intergenic
TGGTAGCGAGTCCATCGTGG+AGG 0.724029 8.2:+24733711 MS.gene011748:CDS
CGTCGACATAACCTCCACGA+TGG 0.726009 8.2:-24733722 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAATTAGTCCAATATTTA+TGG - chr8.2:24732703-24732722 None:intergenic 15.0%
!! ATTATTAATGATGTAAATGA+TGG + chr8.2:24733346-24733365 MS.gene011748:intron 15.0%
!! TAATGTATCAATAGTTAATA+AGG + chr8.2:24733118-24733137 MS.gene011748:intron 15.0%
!! TTATTAATGATGTAAATGAT+GGG + chr8.2:24733347-24733366 MS.gene011748:intron 15.0%
!!! TAAATATCATATATTTTGAG+TGG + chr8.2:24732931-24732950 MS.gene011748:intron 15.0%
!!! TTTTGATCATTATATTATGT+AGG + chr8.2:24732993-24733012 MS.gene011748:intron 15.0%
!! ATTATATTATGTAGGCATAT+TGG + chr8.2:24733001-24733020 MS.gene011748:intron 20.0%
!! GATAAAAATTATCTCTTGAA+AGG - chr8.2:24732847-24732866 None:intergenic 20.0%
!! GATCAAAATAAAAACTACAT+AGG - chr8.2:24732981-24733000 None:intergenic 20.0%
!! GATTAATCATTGTACAATAA+TGG + chr8.2:24732595-24732614 MS.gene011748:intron 20.0%
!! TATTAATGATGTAAATGATG+GGG + chr8.2:24733348-24733367 MS.gene011748:intron 20.0%
!!! ATAATTTTGTTGAATAGATC+AGG - chr8.2:24732476-24732495 None:intergenic 20.0%
!!! TATTGCATCCTTTTTTTTAA+AGG - chr8.2:24733149-24733168 None:intergenic 20.0%
!!! TTTTTTCTTTCTTTCATCTT+TGG + chr8.2:24733181-24733200 MS.gene011748:intron 20.0%
!!! TTTTTTGTCTCCATAAATAT+TGG + chr8.2:24732690-24732709 MS.gene011748:intron 20.0%
! ATTAATGATGTAAATGATGG+GGG + chr8.2:24733349-24733368 MS.gene011748:intron 25.0%
!! TCAACAAAGTCTTATATTTG+AGG - chr8.2:24732793-24732812 None:intergenic 25.0%
!!! TTTAATTTGACCATATACCT+TGG - chr8.2:24732515-24732534 None:intergenic 25.0%
AAATTGTTTGTAACACGCTT+AGG - chr8.2:24733576-24733595 None:intergenic 30.0%
AATTACAAATCATGGTGTTC+TGG + chr8.2:24733460-24733479 MS.gene011748:CDS 30.0%
AATTGTTTGTAACACGCTTA+GGG - chr8.2:24733575-24733594 None:intergenic 30.0%
ATACTTTGTATAATGTGGCA+TGG - chr8.2:24733640-24733659 None:intergenic 30.0%
ATCATAAGCATAACCTTCTA+AGG - chr8.2:24732357-24732376 None:intergenic 30.0%
CATGAGACAAATATTATGCA+TGG + chr8.2:24733606-24733625 MS.gene011748:CDS 30.0%
CCACATTATACAAAGTATGA+AGG + chr8.2:24733642-24733661 MS.gene011748:CDS 30.0%
CCTTCATACTTTGTATAATG+TGG - chr8.2:24733645-24733664 None:intergenic 30.0%
GTCATACTTTATGACAACAT+GGG + chr8.2:24732284-24732303 MS.gene011748:CDS 30.0%
TACTTTGTATAATGTGGCAT+GGG - chr8.2:24733639-24733658 None:intergenic 30.0%
TGGCATCAAATTACAAATCA+TGG + chr8.2:24733452-24733471 MS.gene011748:CDS 30.0%
TGTCATACTTTATGACAACA+TGG + chr8.2:24732283-24732302 MS.gene011748:CDS 30.0%
! AGGATGCACCTTTAAAAAAA+AGG + chr8.2:24733138-24733157 MS.gene011748:intron 30.0%
! GTTGATTCATGTATCTTTGT+TGG + chr8.2:24732404-24732423 MS.gene011748:CDS 30.0%
! TTAATGATGTAAATGATGGG+GGG + chr8.2:24733350-24733369 MS.gene011748:intron 30.0%
ACAAAGTATGAAGGATCTAG+CGG + chr8.2:24733651-24733670 MS.gene011748:CDS 35.0%
ACACATTCGTCATGATATTG+CGG + chr8.2:24733801-24733820 MS.gene011748:CDS 35.0%
AGGATTTGAGCAAGAAGATT+TGG + chr8.2:24733411-24733430 MS.gene011748:CDS 35.0%
CGCTCAAAATCAAAGTAATC+TGG - chr8.2:24732326-24732345 None:intergenic 35.0%
! TTTTGATATCAGCTTCTCCA+AGG + chr8.2:24732495-24732514 MS.gene011748:CDS 35.0%
!! CATTCTGTTTCTGCTATGAT+TGG + chr8.2:24732428-24732447 MS.gene011748:CDS 35.0%
ATCAGCTTCTCCAAGGTATA+TGG + chr8.2:24732502-24732521 MS.gene011748:intron 40.0%
CGAAACTCATCTAAGAGATG+AGG - chr8.2:24732263-24732282 None:intergenic 40.0%
CGAATGTGTTTGAGTATCAC+CGG - chr8.2:24733790-24733809 None:intergenic 40.0%
GAAGTGAGTGTGTGTGTATA+TGG + chr8.2:24733258-24733277 MS.gene011748:intron 40.0%
GAGCGTTATTCAACCTTAGA+AGG + chr8.2:24732341-24732360 MS.gene011748:CDS 40.0%
GGATCAACTATTCGATGCTA+TGG + chr8.2:24733432-24733451 MS.gene011748:CDS 40.0%
TTGGCACAGATCAATCTGTA+TGG + chr8.2:24732225-24732244 MS.gene011748:CDS 40.0%
! AGCTCACAACGTGAAAGTTT+TGG + chr8.2:24732166-24732185 MS.gene011748:CDS 40.0%
! ATGTAAATGATGGGGGGATT+TGG + chr8.2:24733356-24733375 MS.gene011748:intron 40.0%
! GCTCACAACGTGAAAGTTTT+GGG + chr8.2:24732167-24732186 MS.gene011748:CDS 40.0%
! TGTAAATGATGGGGGGATTT+GGG + chr8.2:24733357-24733376 MS.gene011748:intron 40.0%
!!! AACGTGAAAGTTTTGGGTTC+AGG + chr8.2:24732173-24732192 MS.gene011748:CDS 40.0%
!!! ACGTGAAAGTTTTGGGTTCA+GGG + chr8.2:24732174-24732193 MS.gene011748:CDS 40.0%
ATCACCGGAATAACAACGTC+CGG - chr8.2:24733775-24733794 None:intergenic 45.0%
CATCTAAGAGATGAGGTACG+AGG - chr8.2:24732256-24732275 None:intergenic 45.0%
CTTTATGACAACATGGGAGC+TGG + chr8.2:24732290-24732309 MS.gene011748:CDS 45.0%
GAGTATCTCCACCAACATGT+TGG + chr8.2:24733691-24733710 MS.gene011748:CDS 45.0%
TATGAAGGATCTAGCGGTTC+CGG + chr8.2:24733657-24733676 MS.gene011748:CDS 45.0%
TTGAACGACAGGGACTACTT+TGG + chr8.2:24733388-24733407 MS.gene011748:CDS 45.0%
! GTAAATGATGGGGGGATTTG+GGG + chr8.2:24733358-24733377 MS.gene011748:intron 45.0%
! GTGTTCTGGATTTGCTCCAA+TGG + chr8.2:24733474-24733493 MS.gene011748:CDS 45.0%
!! ATAGTTCTAGCTCACGGGTT+TGG + chr8.2:24732206-24732225 MS.gene011748:CDS 45.0%
!! CGGTTCATAGTTCTAGCTCA+CGG + chr8.2:24732200-24732219 MS.gene011748:CDS 45.0%
!! GGGAAGGTATTTGAACGACA+GGG + chr8.2:24733378-24733397 MS.gene011748:intron 45.0%
!! GGTTCATAGTTCTAGCTCAC+GGG + chr8.2:24732201-24732220 MS.gene011748:CDS 45.0%
!!! AAGTTTTGGGTTCAGGGTCA+CGG + chr8.2:24732180-24732199 MS.gene011748:CDS 45.0%
!!! AAATATTAATTTTATTCTTA+AGG + chr8.2:24733065-24733084 MS.gene011748:intron 5.0%
!!! TAAATTATAATATTGATTTT+AGG + chr8.2:24732728-24732747 MS.gene011748:intron 5.0%
AACACGCTTAGGGCTATGTC+TGG - chr8.2:24733565-24733584 None:intergenic 50.0%
AACGACAGGGACTACTTTGG+AGG + chr8.2:24733391-24733410 MS.gene011748:CDS 50.0%
ACTCGCTACCAACATGTTGG+TGG - chr8.2:24733702-24733721 None:intergenic 50.0%
CATCGTGGAGGTTATGTCGA+CGG + chr8.2:24733723-24733742 MS.gene011748:CDS 50.0%
TGGACTCGCTACCAACATGT+TGG - chr8.2:24733705-24733724 None:intergenic 50.0%
TTGCTCCAATGGCAGTTGGA+GGG + chr8.2:24733485-24733504 MS.gene011748:CDS 50.0%
TTTGCTCCAATGGCAGTTGG+AGG + chr8.2:24733484-24733503 MS.gene011748:CDS 50.0%
! GGATTTGCTCCAATGGCAGT+TGG + chr8.2:24733481-24733500 MS.gene011748:CDS 50.0%
!! GGGGAAGGTATTTGAACGAC+AGG + chr8.2:24733377-24733396 MS.gene011748:intron 50.0%
AATGGCAGTTGGAGGGGACA+TGG + chr8.2:24733492-24733511 MS.gene011748:CDS 55.0%
ATGTCCCCTCCAACTGCCAT+TGG - chr8.2:24733493-24733512 None:intergenic 55.0%
CGTCGACATAACCTCCACGA+TGG - chr8.2:24733725-24733744 None:intergenic 55.0%
GTGGAGGTTATGTCGACGGA+GGG + chr8.2:24733727-24733746 MS.gene011748:CDS 55.0%
TGCTCCAATGGCAGTTGGAG+GGG + chr8.2:24733486-24733505 MS.gene011748:CDS 55.0%
TTTGCCGCAGTTAAGCTCGC+CGG + chr8.2:24733753-24733772 MS.gene011748:CDS 55.0%
! ATGATGGGGGGATTTGGGGA+AGG + chr8.2:24733362-24733381 MS.gene011748:intron 55.0%
! CTCGCCGGACGTTGTTATTC+CGG + chr8.2:24733768-24733787 MS.gene011748:CDS 55.0%
!! TGTTGGTAGCGAGTCCATCG+TGG + chr8.2:24733708-24733727 MS.gene011748:CDS 55.0%
ACGTCCGGCGAGCTTAACTG+CGG - chr8.2:24733760-24733779 None:intergenic 60.0%
AGATACTCCGCGACCACGAC+CGG - chr8.2:24733679-24733698 None:intergenic 60.0%
CGTGGAGGTTATGTCGACGG+AGG + chr8.2:24733726-24733745 MS.gene011748:CDS 60.0%
! TGGTAGCGAGTCCATCGTGG+AGG + chr8.2:24733711-24733730 MS.gene011748:CDS 60.0%
GGATCTAGCGGTTCCGGTCG+TGG + chr8.2:24733663-24733682 MS.gene011748:CDS 65.0%
AGCGGTTCCGGTCGTGGTCG+CGG + chr8.2:24733669-24733688 MS.gene011748:CDS 70.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 24732149 24733828 24732149 ID=MS.gene011748
chr8.2 mRNA 24732149 24733828 24732149 ID=MS.gene011748.t1;Parent=MS.gene011748
chr8.2 exon 24732149 24732516 24732149 ID=MS.gene011748.t1.exon1;Parent=MS.gene011748.t1
chr8.2 CDS 24732149 24732516 24732149 ID=cds.MS.gene011748.t1;Parent=MS.gene011748.t1
chr8.2 exon 24733384 24733828 24733384 ID=MS.gene011748.t1.exon2;Parent=MS.gene011748.t1
chr8.2 CDS 24733384 24733828 24733384 ID=cds.MS.gene011748.t1;Parent=MS.gene011748.t1
Gene Sequence

>MS.gene011748

ATGGGGATAGTAGAAGAAGCTCACAACGTGAAAGTTTTGGGTTCAGGGTCACGGTTCATAGTTCTAGCTCACGGGTTTGGCACAGATCAATCTGTATGGAAACACCTCGTACCTCATCTCTTAGATGAGTTTCGTGTCATACTTTATGACAACATGGGAGCTGGTACAACTAATCCAGATTACTTTGATTTTGAGCGTTATTCAACCTTAGAAGGTTATGCTTATGATTTACTTGCAATCTTAGAAGAACTTCGAGTTGATTCATGTATCTTTGTTGGTCATTCTGTTTCTGCTATGATTGGAACTGTTGCATCAATTTCTCGACCTGATCTATTCAACAAAATTATTTTGATATCAGCTTCTCCAAGGTATATGGTCAAATTAAATTTGTCTTTGATGTTTTTTGAAGTTTTTTTGTTGACAAACTTTGATGATTTCAAGTTAGAGATTAATCATTGTACAATAATGGTTAGTTTGACTTTTGTTATTCAGTGCTTCTCTATTTCAAGACACAATCAATTTTTTTATTTAAAGCATAGTTTTTTTTGTCTCCATAAATATTGGACTAATTTTTAATGTTAAATTATAATATTGATTTTAGGCATTGAAATAGAATATATTTTTTTAATAAGCATCGTGTTCCTCAAATATAAGACTTTGTTGATGAAAAGAGAGAAAACTGTTTTTCAAATTTACCTTTCAAGAGATAATTTTTATCATAATAATTTTCAATGATACTTACAAGAAAAATGTGTAAAACAATTAATACAATTAAAAATTTGTAAATATCATATATTTTGAGTGGACATATAGAAATACTGTTTTTTAACCTATGTAGTTTTTATTTTGATCATTATATTATGTAGGCATATTGGCTTTTTAATGTTGACAATATTAATTTTAATCTTTTTTGACAAAATATTAATTTTATTCTTAAGGATCACATTTTTCAAAATAATAATCATTTCTTAATGTATCAATAGTTAATAAGGATGCACCTTTAAAAAAAAGGATGCAATAGTAGAATCACATTTTTTTCTTTCTTTCATCTTTGGTATTTTCTTAATTTGTATGAAATAATCAAATGTCATACTTATTGTGCGACAGATGAAGTGAGTGTGTGTGTATATGGATATTTTTCTTACTTATTTGATAATTTATTTATATGTATACAATTACATAAGAAAATAGCAATGAATTATTAATGATGTAAATGATGGGGGGATTTGGGGAAGGTATTTGAACGACAGGGACTACTTTGGAGGATTTGAGCAAGAAGATTTGGATCAACTATTCGATGCTATGGCATCAAATTACAAATCATGGTGTTCTGGATTTGCTCCAATGGCAGTTGGAGGGGACATGGAGTCAGTAGCAGTACAAGAATTCAGTCGAACTTTGTTCAACATGAGACCAGACATAGCCCTAAGCGTGTTACAAACAATTTTTAAAAGTGACATGAGACAAATATTATGCATGGTCACTGTCCCATGCCACATTATACAAAGTATGAAGGATCTAGCGGTTCCGGTCGTGGTCGCGGAGTATCTCCACCAACATGTTGGTAGCGAGTCCATCGTGGAGGTTATGTCGACGGAGGGTCATTTGCCGCAGTTAAGCTCGCCGGACGTTGTTATTCCGGTGATACTCAAACACATTCGTCATGATATTGCGGCTTGA

Protein sequence

>MS.gene011748.t1

MGIVEEAHNVKVLGSGSRFIVLAHGFGTDQSVWKHLVPHLLDEFRVILYDNMGAGTTNPDYFDFERYSTLEGYAYDLLAILEELRVDSCIFVGHSVSAMIGTVASISRPDLFNKIILISASPRYLNDRDYFGGFEQEDLDQLFDAMASNYKSWCSGFAPMAVGGDMESVAVQEFSRTLFNMRPDIALSVLQTIFKSDMRQILCMVTVPCHIIQSMKDLAVPVVVAEYLHQHVGSESIVEVMSTEGHLPQLSSPDVVIPVILKHIRHDIAA