AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene056234


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056234.t1 MTR_8g039090 93.229 192 13 0 1 192 1 192 1.13e-134 375
MS.gene056234.t1 MTR_3g019160 76.562 192 44 1 1 192 1 191 6.73e-108 307
MS.gene056234.t1 MTR_3g019090 72.872 188 51 0 5 192 4 191 7.75e-106 301
MS.gene056234.t1 MTR_3g019150 73.545 189 49 1 4 192 3 190 1.56e-102 293
MS.gene056234.t1 MTR_3g019120 64.398 191 65 1 3 190 2 192 2.07e-88 265
MS.gene056234.t1 MTR_3g019120 64.398 191 65 1 3 190 2 192 4.52e-87 265
MS.gene056234.t1 MTR_3g019090 72.535 142 39 0 51 192 1 142 4.22e-79 232
MS.gene056234.t1 MTR_3g019120 67.105 152 50 0 39 190 1 152 2.77e-73 228
MS.gene056234.t1 MTR_3g019150 77.000 100 23 0 93 192 35 134 4.18e-55 171
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056234.t1 AT3G27890 75.936 187 45 0 5 191 10 196 2.36e-102 293

Find 37 sgRNAs with CRISPR-Local

Find 105 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAAAGTGGCAGCACTTTC+TGG 0.206807 8.1:+65027407 MS.gene056234:CDS
CATCTAGACCACCAAATGTT+TGG 0.329711 8.1:+65028680 MS.gene056234:CDS
CTTTGAAGAATGCAATTGAT+TGG 0.350901 8.1:+65028656 MS.gene056234:CDS
ATCTAGACCACCAAATGTTT+GGG 0.385196 8.1:+65028681 MS.gene056234:CDS
TTTGAAGAATGCAATTGATT+GGG 0.425883 8.1:+65028657 MS.gene056234:CDS
GCATTTACTCTGAGACTTCA+AGG 0.432779 8.1:+65028925 MS.gene056234:CDS
AGAGAGAACCAGCACGGATA+AGG 0.440891 8.1:-65027460 None:intergenic
TGGCGAAAAGCTTCAACAAC+AGG 0.452851 8.1:-65027667 None:intergenic
TTTCCAGCCCAAACATTTGG+TGG 0.464756 8.1:-65028688 None:intergenic
ATAAGCACTGGAGGAGACTT+TGG 0.465806 8.1:+65028724 MS.gene056234:CDS
CGGCGATTTGATTGATGAAG+AGG 0.499893 8.1:+65028864 MS.gene056234:CDS
CACTCAGGCCTTATCCGTGC+TGG 0.501119 8.1:+65027452 MS.gene056234:CDS
GGCTAAGGATAAGCTTAAGC+AGG 0.509373 8.1:+65028885 MS.gene056234:CDS
GCAGCAATTGAATTGAGTAA+AGG 0.518179 8.1:+65027556 MS.gene056234:intron
TTGAGTAAAGGAGCAATTGA+AGG 0.521083 8.1:+65027568 MS.gene056234:CDS
TTTGATTGATGAAGAGGCTA+AGG 0.522697 8.1:+65028870 MS.gene056234:CDS
AGACCACCAAATGTTTGGGC+TGG 0.522737 8.1:+65028685 MS.gene056234:CDS
GCAGCTGCAATCATAAGCAC+TGG 0.535634 8.1:+65028712 MS.gene056234:CDS
CAATCAATTGCATTCTTCAA+AGG 0.536460 8.1:-65028655 None:intergenic
CAATATCATCTACGCCAAGT+TGG 0.566210 8.1:+65028760 MS.gene056234:CDS
TCAAGATCAGTGTTATACAT+TGG 0.571274 8.1:-65027625 None:intergenic
TAACACTGATCTTGAAAACA+AGG 0.588794 8.1:+65027633 MS.gene056234:CDS
GAGTATAATTACTCTCTCAC+AGG 0.592007 8.1:+65027730 MS.gene056234:CDS
CCTGCAAAATTCAATGATGA+CGG 0.593971 8.1:+65028844 MS.gene056234:CDS
CGAAAAGCTTCAACAACAGG+TGG 0.602230 8.1:-65027664 None:intergenic
GTGAGAGAGTAATTATACTC+AGG 0.609716 8.1:-65027727 None:intergenic
ACTGGAGGAGACTTTGGCGG+TGG 0.610622 8.1:+65028730 MS.gene056234:CDS
AGCACTGGAGGAGACTTTGG+CGG 0.611760 8.1:+65028727 MS.gene056234:CDS
AGAAAAGCTTCATACCACTC+AGG 0.621659 8.1:+65027437 MS.gene056234:CDS
GATCGATATAGACTCCAACT+TGG 0.643158 8.1:-65028774 None:intergenic
AATGCTCTTAGAAAGAACTC+AGG 0.646361 8.1:-65028814 None:intergenic
GCTGCAATCATAAGCACTGG+AGG 0.650272 8.1:+65028715 MS.gene056234:CDS
TATCAGCTTGAAGAATCTTG+TGG 0.652286 8.1:-65027687 None:intergenic
AGAGAAAGAGAGAACCAGCA+CGG 0.654309 8.1:-65027466 None:intergenic
AACACTGATCTTGAAAACAA+GGG 0.673165 8.1:+65027634 MS.gene056234:CDS
CAGCACGGATAAGGCCTGAG+TGG 0.690555 8.1:-65027451 None:intergenic
GGCAACAGCAGTGATCAAAG+TGG 0.716829 8.1:+65027394 MS.gene056234:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAATTCATCAAAAAATATA+CGG - chr8.1:65027935-65027954 None:intergenic 10.0%
!!! ATACTTAACAATTTTTATAA+TGG + chr8.1:65028113-65028132 MS.gene056234:intron 10.0%
!!! TAATTCTTTTTATTACAAAT+TGG - chr8.1:65028569-65028588 None:intergenic 10.0%
!! TAATTCATCAAAAAATATAC+GGG - chr8.1:65027934-65027953 None:intergenic 15.0%
!! TTTATACCATTTAAATACTA+CGG - chr8.1:65028402-65028421 None:intergenic 15.0%
!!! GTATATTTTTTGATGAATTA+AGG + chr8.1:65027934-65027953 MS.gene056234:intron 15.0%
!!! TTCTTTTATTCTTCTATTAT+TGG - chr8.1:65027818-65027837 None:intergenic 15.0%
!!! CTTTGAAATTGTAATAGTTT+GGG + chr8.1:65028156-65028175 MS.gene056234:intron 20.0%
!!! TCTTTTTATTACAAATTGGT+CGG - chr8.1:65028565-65028584 None:intergenic 20.0%
! CCAAACTATTACAATTTCAA+AGG - chr8.1:65028158-65028177 None:intergenic 25.0%
! TAAATGGTATAAAGAAACTG+CGG + chr8.1:65028409-65028428 MS.gene056234:intron 25.0%
! TTTGAAGAATGCAATTGATT+GGG + chr8.1:65028657-65028676 MS.gene056234:CDS 25.0%
!!! CCTTTGAAATTGTAATAGTT+TGG + chr8.1:65028155-65028174 MS.gene056234:intron 25.0%
AACACTGATCTTGAAAACAA+GGG + chr8.1:65027634-65027653 MS.gene056234:CDS 30.0%
ACAACCAATGTATAGTACTT+AGG + chr8.1:65027968-65027987 MS.gene056234:intron 30.0%
ACACAAAATAAAGGTGAAGA+TGG - chr8.1:65028629-65028648 None:intergenic 30.0%
AGGAGCTAAACACAAAATAA+AGG - chr8.1:65028638-65028657 None:intergenic 30.0%
CAATCAATTGCATTCTTCAA+AGG - chr8.1:65028658-65028677 None:intergenic 30.0%
GAATGTTTGAATGTTTGATG+AGG - chr8.1:65028476-65028495 None:intergenic 30.0%
TAACACTGATCTTGAAAACA+AGG + chr8.1:65027633-65027652 MS.gene056234:CDS 30.0%
TCAAGATCAGTGTTATACAT+TGG - chr8.1:65027628-65027647 None:intergenic 30.0%
TCTGAACCGTAGTATTTAAA+TGG + chr8.1:65028393-65028412 MS.gene056234:intron 30.0%
TGATAGTCTCAACATTTCAA+TGG + chr8.1:65028191-65028210 MS.gene056234:intron 30.0%
! CTTTGAAGAATGCAATTGAT+TGG + chr8.1:65028656-65028675 MS.gene056234:CDS 30.0%
!! TTGTAGCTTTGAAATGATCA+TGG - chr8.1:65028291-65028310 None:intergenic 30.0%
!!! GTTGTAGTTTTGAATTTGCA+TGG + chr8.1:65027521-65027540 MS.gene056234:intron 30.0%
AAAGTGAAAGAACCCACAAA+CGG + chr8.1:65028317-65028336 MS.gene056234:intron 35.0%
AATGCTCTTAGAAAGAACTC+AGG - chr8.1:65028817-65028836 None:intergenic 35.0%
ATCTAGACCACCAAATGTTT+GGG + chr8.1:65028681-65028700 MS.gene056234:CDS 35.0%
CCTGCAAAATTCAATGATGA+CGG + chr8.1:65028844-65028863 MS.gene056234:CDS 35.0%
CTATATCTCCGAATGTAGAA+TGG - chr8.1:65028435-65028454 None:intergenic 35.0%
GAATGTTTGATGAGGAAGTT+CGG - chr8.1:65028468-65028487 None:intergenic 35.0%
GAGTATAATTACTCTCTCAC+AGG + chr8.1:65027730-65027749 MS.gene056234:CDS 35.0%
GCAAATGTAGTACGTATCAT+TGG - chr8.1:65027891-65027910 None:intergenic 35.0%
GCAGCAATTGAATTGAGTAA+AGG + chr8.1:65027556-65027575 MS.gene056234:intron 35.0%
GTGAGAGAGTAATTATACTC+AGG - chr8.1:65027730-65027749 None:intergenic 35.0%
TATCAGCTTGAAGAATCTTG+TGG - chr8.1:65027690-65027709 None:intergenic 35.0%
TGGACCTAAGTACTATACAT+TGG - chr8.1:65027975-65027994 None:intergenic 35.0%
TTCGGAGATATAGACACAAA+AGG + chr8.1:65028442-65028461 MS.gene056234:intron 35.0%
TTGAGTAAAGGAGCAATTGA+AGG + chr8.1:65027568-65027587 MS.gene056234:CDS 35.0%
TTTGATTGATGAAGAGGCTA+AGG + chr8.1:65028870-65028889 MS.gene056234:CDS 35.0%
! TCATCATTGAATTTTGCAGG+TGG - chr8.1:65028844-65028863 None:intergenic 35.0%
!! TAGCTTTGAAATGATCATGG+TGG - chr8.1:65028288-65028307 None:intergenic 35.0%
!!! ATATCCAACCGCTTTTTCAT+CGG - chr8.1:65028352-65028371 None:intergenic 35.0%
AAGCGCTAAAGCTATCATGT+AGG - chr8.1:65028220-65028239 None:intergenic 40.0%
AATTCCGATGAAAAAGCGGT+TGG + chr8.1:65028345-65028364 MS.gene056234:intron 40.0%
AGAAAAGCTTCATACCACTC+AGG + chr8.1:65027437-65027456 MS.gene056234:CDS 40.0%
AGCGCTAAAGCTATCATGTA+GGG - chr8.1:65028219-65028238 None:intergenic 40.0%
CAATATCATCTACGCCAAGT+TGG + chr8.1:65028760-65028779 MS.gene056234:CDS 40.0%
CATATATAGACACCGAAGAG+TGG - chr8.1:65028089-65028108 None:intergenic 40.0%
CATCTAGACCACCAAATGTT+TGG + chr8.1:65028680-65028699 MS.gene056234:CDS 40.0%
GATCGATATAGACTCCAACT+TGG - chr8.1:65028777-65028796 None:intergenic 40.0%
GATGAAAAAGCGGTTGGATA+TGG + chr8.1:65028351-65028370 MS.gene056234:intron 40.0%
GCAGGTGTATTGTTGTAATC+TGG - chr8.1:65027995-65028014 None:intergenic 40.0%
GGACAATTCCGATGAAAAAG+CGG + chr8.1:65028341-65028360 MS.gene056234:intron 40.0%
! AGTGGTATGAAGCTTTTCTG+AGG - chr8.1:65027436-65027455 None:intergenic 40.0%
! CCGTCATCATTGAATTTTGC+AGG - chr8.1:65028847-65028866 None:intergenic 40.0%
! GATCATGGTGGAAAGTCATT+GGG - chr8.1:65028276-65028295 None:intergenic 40.0%
! GCAGGTTCTTTTATCTTTGC+AGG + chr8.1:65028903-65028922 MS.gene056234:CDS 40.0%
! GTGGTATGAAGCTTTTCTGA+GGG - chr8.1:65027435-65027454 None:intergenic 40.0%
! TGATCATGGTGGAAAGTCAT+TGG - chr8.1:65028277-65028296 None:intergenic 40.0%
!! GCATTTACTCTGAGACTTCA+AGG + chr8.1:65028925-65028944 MS.gene056234:CDS 40.0%
!! TGATAGCTTTAGCGCTTGAT+TGG + chr8.1:65028223-65028242 MS.gene056234:intron 40.0%
AACTGCGGCCATTCTACATT+CGG + chr8.1:65028424-65028443 MS.gene056234:intron 45.0%
AAGGAGCTTTGCTAGCAAAG+GGG - chr8.1:65028048-65028067 None:intergenic 45.0%
AGAGAAAGAGAGAACCAGCA+CGG - chr8.1:65027469-65027488 None:intergenic 45.0%
ATCAAAGTGGCAGCACTTTC+TGG + chr8.1:65027407-65027426 MS.gene056234:CDS 45.0%
CGAAAAGCTTCAACAACAGG+TGG - chr8.1:65027667-65027686 None:intergenic 45.0%
CGGCGATTTGATTGATGAAG+AGG + chr8.1:65028864-65028883 MS.gene056234:CDS 45.0%
GAAGGAGCTTTGCTAGCAAA+GGG - chr8.1:65028049-65028068 None:intergenic 45.0%
GGCTAAGGATAAGCTTAAGC+AGG + chr8.1:65028885-65028904 MS.gene056234:CDS 45.0%
TGAAGGAGCTTTGCTAGCAA+AGG - chr8.1:65028050-65028069 None:intergenic 45.0%
TGGCGAAAAGCTTCAACAAC+AGG - chr8.1:65027670-65027689 None:intergenic 45.0%
TTTCCAGCCCAAACATTTGG+TGG - chr8.1:65028691-65028710 None:intergenic 45.0%
! GCTTTTCCAGCCCAAACATT+TGG - chr8.1:65028694-65028713 None:intergenic 45.0%
!! ATAAGCACTGGAGGAGACTT+TGG + chr8.1:65028724-65028743 MS.gene056234:CDS 45.0%
!!! TTTAGATTTTTATTTTTTTT+TGG + chr8.1:65027780-65027799 MS.gene056234:intron 5.0%
AAAGCGGTTGGATATGGCTC+AGG + chr8.1:65028357-65028376 MS.gene056234:intron 50.0%
AGACCACCAAATGTTTGGGC+TGG + chr8.1:65028685-65028704 MS.gene056234:CDS 50.0%
AGAGAGAACCAGCACGGATA+AGG - chr8.1:65027463-65027482 None:intergenic 50.0%
CGGAATTGTCCACCGTTTGT+GGG - chr8.1:65028332-65028351 None:intergenic 50.0%
GCAGCTGCAATCATAAGCAC+TGG + chr8.1:65028712-65028731 MS.gene056234:CDS 50.0%
GGCAACAGCAGTGATCAAAG+TGG + chr8.1:65027394-65027413 MS.gene056234:CDS 50.0%
GTGAAAGAACCCACAAACGG+TGG + chr8.1:65028320-65028339 MS.gene056234:intron 50.0%
TAGACACCGAAGAGTGGCAA+TGG - chr8.1:65028083-65028102 None:intergenic 50.0%
TCGGAATTGTCCACCGTTTG+TGG - chr8.1:65028333-65028352 None:intergenic 50.0%
! CATGGTGGAAAGTCATTGGG+AGG - chr8.1:65028273-65028292 None:intergenic 50.0%
!! GCGCTTGATTGGTAATGCGT+AGG + chr8.1:65028234-65028253 MS.gene056234:intron 50.0%
!! GCTGCAATCATAAGCACTGG+AGG + chr8.1:65028715-65028734 MS.gene056234:CDS 50.0%
ACCGAAGAGTGGCAATGGCA+AGG - chr8.1:65028078-65028097 None:intergenic 55.0%
CCCTTGCCATTGCCACTCTT+CGG + chr8.1:65028074-65028093 MS.gene056234:intron 55.0%
CCGAAGAGTGGCAATGGCAA+GGG - chr8.1:65028077-65028096 None:intergenic 55.0%
CGAAGAGTGGCAATGGCAAG+GGG - chr8.1:65028076-65028095 None:intergenic 55.0%
CTTTGCTAGCAAAGGGGCGA+CGG - chr8.1:65028042-65028061 None:intergenic 55.0%
GACGGGGTTATATTCCCTCG+AGG - chr8.1:65028024-65028043 None:intergenic 55.0%
TTTGCTAGCAAAGGGGCGAC+GGG - chr8.1:65028041-65028060 None:intergenic 55.0%
! AGCACTGGAGGAGACTTTGG+CGG + chr8.1:65028727-65028746 MS.gene056234:CDS 55.0%
ACACCTGCATCGTGCCTCGA+GGG + chr8.1:65028007-65028026 MS.gene056234:intron 60.0%
ACTGGAGGAGACTTTGGCGG+TGG + chr8.1:65028730-65028749 MS.gene056234:CDS 60.0%
ATTCCCTCGAGGCACGATGC+AGG - chr8.1:65028013-65028032 None:intergenic 60.0%
CAGCACGGATAAGGCCTGAG+TGG - chr8.1:65027454-65027473 None:intergenic 60.0%
GCAATGGCAAGGGGCAGTGA+AGG - chr8.1:65028067-65028086 None:intergenic 60.0%
TACACCTGCATCGTGCCTCG+AGG + chr8.1:65028006-65028025 MS.gene056234:intron 60.0%
TTGCTAGCAAAGGGGCGACG+GGG - chr8.1:65028040-65028059 None:intergenic 60.0%
! CACTCAGGCCTTATCCGTGC+TGG + chr8.1:65027452-65027471 MS.gene056234:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 65027392 65028957 65027392 ID=MS.gene056234
chr8.1 mRNA 65027392 65028957 65027392 ID=MS.gene056234.t1;Parent=MS.gene056234
chr8.1 exon 65027392 65027473 65027392 ID=MS.gene056234.t1.exon1;Parent=MS.gene056234.t1
chr8.1 CDS 65027392 65027473 65027392 ID=cds.MS.gene056234.t1;Parent=MS.gene056234.t1
chr8.1 exon 65027560 65027751 65027560 ID=MS.gene056234.t1.exon2;Parent=MS.gene056234.t1
chr8.1 CDS 65027560 65027751 65027560 ID=cds.MS.gene056234.t1;Parent=MS.gene056234.t1
chr8.1 exon 65028653 65028957 65028653 ID=MS.gene056234.t1.exon3;Parent=MS.gene056234.t1
chr8.1 CDS 65028653 65028957 65028653 ID=cds.MS.gene056234.t1;Parent=MS.gene056234.t1
Gene Sequence

>MS.gene056234

ATGGCAACAGCAGTGATCAAAGTGGCAGCACTTTCTGGTTCCCTCAGAAAAGCTTCATACCACTCAGGCCTTATCCGTGCTGGTTCTCTCTTTCTCTTCTTGTTTCTTCTTTGATATTGCTTAAAAATTGTTGTAGTTTTGAATTTGCATGGTTGATGATGATTGCAGCAATTGAATTGAGTAAAGGAGCAATTGAAGGAATTGAGATTGAGTTCATTGATATTTCAACTCTACCAATGTATAACACTGATCTTGAAAACAAGGGAACTTATCCACCTGTTGTTGAAGCTTTTCGCCACAAGATTCTTCAAGCTGATAGTGTTCTTTTTGCTTCTCCTGAGTATAATTACTCTCTCACAGGTACTATTTTCTTGTGCTTCTATATTGATTTAGATTTTTATTTTTTTTTGGTTAGAACATCAACCAATAATAGAAGAATAAAAGAAACTGAAAAATCGCACGACAGCGAGACAAAATCTTTGTTCACGTAATTCTGCCAATGATACGTACTACATTTGCGACTATATAGCAACTATAATCCCGTATATTTTTTGATGAATTAAGGTTTACACTGTTACAACCAATGTATAGTACTTAGGTCCAGATTACAACAATACACCTGCATCGTGCCTCGAGGGAATATAACCCCGTCGCCCCTTTGCTAGCAAAGCTCCTTCACTGCCCCTTGCCATTGCCACTCTTCGGTGTCTATATATGAGTCATACTTAACAATTTTTATAATGGTCGTTTCTATCTGTTTGTTCCTTTGAAATTGTAATAGTTTGGGTTGAATCTCTGTTGATAGTCTCAACATTTCAATGGTGCCCTACATGATAGCTTTAGCGCTTGATTGGTAATGCGTAGGAACATTTTTCTCACCTCCCAATGACTTTCCACCATGATCATTTCAAAGCTACAAATTTTCAAAGTGAAAGAACCCACAAACGGTGGACAATTCCGATGAAAAAGCGGTTGGATATGGCTCAGGAATAATAGCATAATCTGAACCGTAGTATTTAAATGGTATAAAGAAACTGCGGCCATTCTACATTCGGAGATATAGACACAAAAGGCCGAACTTCCTCATCAAACATTCAAACATTCTGCATTCTGCATTCTGCAATCAAACATTCTAACAGAAACAAACACAGACATTGTGTGCGATTTCTACCGACCAATTTGTAATAAAAAGAATTAAGACTATGAATTAATCATGAGATACATAAGTTTATTTCCATCTTCACCTTTATTTTGTGTTTAGCTCCTTTGAAGAATGCAATTGATTGGGCATCTAGACCACCAAATGTTTGGGCTGGAAAAGCAGCTGCAATCATAAGCACTGGAGGAGACTTTGGCGGTGGAAGATCACAATATCATCTACGCCAAGTTGGAGTCTATATCGATCTTCATTTCATCAATAAACCTGAGTTCTTTCTAAGAGCATTTCAGCCACCTGCAAAATTCAATGATGACGGCGATTTGATTGATGAAGAGGCTAAGGATAAGCTTAAGCAGGTTCTTTTATCTTTGCAGGCATTTACTCTGAGACTTCAAGGCAAAAGCTGA

Protein sequence

>MS.gene056234.t1

MATAVIKVAALSGSLRKASYHSGLIRAAIELSKGAIEGIEIEFIDISTLPMYNTDLENKGTYPPVVEAFRHKILQADSVLFASPEYNYSLTAPLKNAIDWASRPPNVWAGKAAAIISTGGDFGGGRSQYHLRQVGVYIDLHFINKPEFFLRAFQPPAKFNDDGDLIDEEAKDKLKQVLLSLQAFTLRLQGKS