AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene91826


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91826.t1 MTR_2g085085 96.460 113 4 0 1 113 1 113 4.48e-70 205
MS.gene91826.t1 MTR_0227s0020 87.611 113 14 0 1 113 1 113 6.53e-38 124
MS.gene91826.t1 MTR_1g060600 73.451 113 29 1 1 113 1 112 1.06e-29 103
MS.gene91826.t1 MTR_2g085105 96.552 29 1 0 1 29 1 29 1.01e-12 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91826.t1 AT2G27710 77.143 70 16 0 1 70 1 70 9.01e-32 108
MS.gene91826.t1 AT3G44590 67.257 113 35 2 1 113 1 111 8.06e-30 103
MS.gene91826.t1 AT3G44590 67.257 113 35 2 1 113 1 111 8.06e-30 103
MS.gene91826.t1 AT2G27720 66.087 115 37 1 1 113 1 115 1.86e-27 97.8
MS.gene91826.t1 AT2G27710 75.385 65 16 0 1 65 1 65 2.36e-25 92.4
MS.gene91826.t1 AT2G27710 75.385 65 16 0 1 65 1 65 2.36e-25 92.4
MS.gene91826.t1 AT2G27710 75.385 65 16 0 1 65 1 65 2.36e-25 92.4
MS.gene91826.t1 AT3G28500 55.652 115 49 2 1 113 1 115 3.03e-25 92.0
MS.gene91826.t1 AT2G27720 59.843 127 37 2 1 113 1 127 6.44e-24 89.0
MS.gene91826.t1 AT2G27720 57.692 130 38 2 1 113 1 130 1.39e-22 85.9
MS.gene91826.t1 AT5G40040 57.895 114 47 1 1 113 1 114 2.22e-16 69.3
MS.gene91826.t1 AT2G27720 66.667 87 27 1 29 113 5 91 5.49e-13 60.1

Find 34 sgRNAs with CRISPR-Local

Find 80 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTTACTTGTTGGCCGTTT+TGG 0.128749 2.2:+12491371 MS.gene91826:CDS
GCTGATCTTAAACAAATTCT+TGG 0.267351 2.2:+12491417 MS.gene91826:CDS
GTTGCTGTGTCTGCTGCAAC+TGG 0.362343 2.2:+12492632 MS.gene91826:CDS
TCTTCCTTTGCTGCTTCAGC+AGG 0.364467 2.2:-12492677 None:intergenic
CTTAAACAAATTCTTGGATC+AGG 0.372982 2.2:+12491423 MS.gene91826:CDS
GTTATCTTTGTGCAGGATAT+GGG 0.399106 2.2:+12492806 MS.gene91826:intron
AGAGAAGAAGGTGGAAGAGA+AGG 0.434796 2.2:+12492697 MS.gene91826:CDS
GATTATCGCAGCTTACTTGT+TGG 0.445399 2.2:+12491362 MS.gene91826:CDS
GTGTCTGCTGCAACTGGAGG+AGG 0.445905 2.2:+12492638 MS.gene91826:CDS
TGCGCCTGCTGAAGCAGCAA+AGG 0.454235 2.2:+12492673 MS.gene91826:CDS
GATCAGCAGCTGAAGGGGAT+TGG 0.469713 2.2:-12491401 None:intergenic
CCTTGCCCTTGACTTCACTT+AGG 0.488662 2.2:-12492544 None:intergenic
TGCCAGTGGAAGAGAAAAGT+TGG 0.491656 2.2:+12492583 MS.gene91826:CDS
CACAGCAACAGCACCACCAC+CGG 0.500128 2.2:-12492618 None:intergenic
AGCAGCAAAGGAAGAGAAGA+AGG 0.518126 2.2:+12492685 MS.gene91826:CDS
GCTTCAGTTCCATCCGGTGG+TGG 0.522209 2.2:+12492605 MS.gene91826:CDS
GGATTGGTTGCCTCCCAAAA+CGG 0.534645 2.2:-12491385 None:intergenic
CAACTCAATGTTGCCATCCT+CGG 0.536919 2.2:-12492519 None:intergenic
GCAACAGCACCACCACCGGA+TGG 0.539099 2.2:-12492614 None:intergenic
TGTTTAAGATCAGCAGCTGA+AGG 0.541739 2.2:-12491408 None:intergenic
TCTTCCACTGGCAATAAGCT+CGG 0.547245 2.2:-12492573 None:intergenic
GTTTAAGATCAGCAGCTGAA+GGG 0.564265 2.2:-12491407 None:intergenic
TTTAAGATCAGCAGCTGAAG+GGG 0.564880 2.2:-12491406 None:intergenic
AAGTTGGCTTCAGTTCCATC+CGG 0.567453 2.2:+12492599 MS.gene91826:CDS
GTTGGAGTTGAGGCCGAGGA+TGG 0.573673 2.2:+12492506 MS.gene91826:intron
GTTGCTCCTAAGTGAAGTCA+AGG 0.590863 2.2:+12492538 MS.gene91826:CDS
GCTGTGTCTGCTGCAACTGG+AGG 0.592795 2.2:+12492635 MS.gene91826:CDS
TATGATTGTAGTTGGAGTTG+AGG 0.599920 2.2:+12492496 MS.gene91826:intron
TTTGCCGAGCTTATTGCCAG+TGG 0.606365 2.2:+12492569 MS.gene91826:CDS
TTGGCTTCAGTTCCATCCGG+TGG 0.607108 2.2:+12492602 MS.gene91826:CDS
CCTAAGTGAAGTCAAGGGCA+AGG 0.616488 2.2:+12492544 MS.gene91826:CDS
TGTAGTTGGAGTTGAGGCCG+AGG 0.617745 2.2:+12492502 MS.gene91826:intron
TTGCTCCTAAGTGAAGTCAA+GGG 0.680870 2.2:+12492539 MS.gene91826:CDS
AGCAAAGGAAGAGAAGAAGG+TGG 0.683753 2.2:+12492688 MS.gene91826:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATAATTTTAATTCAAGTT+TGG + chr2.2:12491865-12491884 MS.gene91826:intron 10.0%
!!! AATAATTTTAATTCAAGTTT+GGG + chr2.2:12491866-12491885 MS.gene91826:intron 10.0%
!! AACAAGATTAAAGATTAAAT+TGG - chr2.2:12491461-12491480 None:intergenic 15.0%
!! ACAAGATTAAAGATTAAATT+GGG - chr2.2:12491460-12491479 None:intergenic 15.0%
!! ATGAAAATTGATCAAAATAT+TGG + chr2.2:12491947-12491966 MS.gene91826:intron 15.0%
!! ATTAAAATCAAACCAATATA+TGG - chr2.2:12492222-12492241 None:intergenic 15.0%
!! TTAAAATCAAACCAATATAT+GGG - chr2.2:12492221-12492240 None:intergenic 15.0%
!!! AAAAAAAGTGACTTTATTTT+TGG + chr2.2:12492470-12492489 MS.gene91826:intron 15.0%
!!! AAAAAAGTGACTTTATTTTT+GGG + chr2.2:12492471-12492490 MS.gene91826:intron 15.0%
!!! TTTAACTTTAATTCAAGTTT+GGG + chr2.2:12491899-12491918 MS.gene91826:intron 15.0%
!! AATAGTTTATGCAAATTCAT+AGG + chr2.2:12492135-12492154 MS.gene91826:intron 20.0%
!! ATGGATCTACTAAAATAATT+CGG - chr2.2:12491556-12491575 None:intergenic 20.0%
!! TAAAATCAAACCAATATATG+GGG - chr2.2:12492220-12492239 None:intergenic 20.0%
!!! AAATATTGGTTTATTTGGAT+TGG + chr2.2:12491961-12491980 MS.gene91826:intron 20.0%
!!! AATTTTGAAACTTACATCAT+CGG - chr2.2:12492729-12492748 None:intergenic 20.0%
!!! ATATTCTACACTTTTACTTA+TGG - chr2.2:12491575-12491594 None:intergenic 20.0%
!!! GATCAAAATATTGGTTTATT+TGG + chr2.2:12491956-12491975 MS.gene91826:intron 20.0%
!!! GGATTTGGTTAATTTATAAT+CGG + chr2.2:12491723-12491742 MS.gene91826:intron 20.0%
!!! GTATATTTTTTTACTGTTGA+AGG + chr2.2:12492357-12492376 MS.gene91826:intron 20.0%
!!! GTTTAACTTTAATTCAAGTT+TGG + chr2.2:12491898-12491917 MS.gene91826:intron 20.0%
!!! TGCTAATTTAATTCAAGTTT+AGG + chr2.2:12491702-12491721 MS.gene91826:intron 20.0%
!!! TTCATTTTTACAGATGTATT+AGG + chr2.2:12492281-12492300 MS.gene91826:intron 20.0%
!!! TTTAATTCAAGTTTAGGATT+TGG + chr2.2:12491708-12491727 MS.gene91826:intron 20.0%
!! TAGTAGTATTGTTTGTTACT+TGG + chr2.2:12492751-12492770 MS.gene91826:intron 25.0%
!! TTTTACTGTTGAAGGAAAAA+TGG + chr2.2:12492365-12492384 MS.gene91826:intron 25.0%
!!! ATTTTAATTCAAGTTTGGGT+TGG + chr2.2:12491870-12491889 MS.gene91826:intron 25.0%
!!! GCATTTTTTGTTTGTTTTTC+CGG + chr2.2:12491514-12491533 MS.gene91826:intron 25.0%
!!! GCTTAGTTTTATACATTGTT+TGG + chr2.2:12492242-12492261 MS.gene91826:intron 25.0%
!!! TTTTAATTCAAGTTTGGGTT+GGG + chr2.2:12491871-12491890 MS.gene91826:intron 25.0%
AAATAATCAATCCTAGACTG+TGG + chr2.2:12491657-12491676 MS.gene91826:intron 30.0%
AATAATCAATCCTAGACTGT+GGG + chr2.2:12491658-12491677 MS.gene91826:intron 30.0%
CTTAAACAAATTCTTGGATC+AGG + chr2.2:12491423-12491442 MS.gene91826:CDS 30.0%
GCTGATCTTAAACAAATTCT+TGG + chr2.2:12491417-12491436 MS.gene91826:CDS 30.0%
TATCTACTGTTAGACTGTTA+AGG + chr2.2:12491997-12492016 MS.gene91826:intron 30.0%
AATCAAACAGCCCCATATAT+TGG + chr2.2:12492207-12492226 MS.gene91826:intron 35.0%
GTTATCTTTGTGCAGGATAT+GGG + chr2.2:12492806-12492825 MS.gene91826:intron 35.0%
TATCTACTGTTGGACAGTTT+GGG + chr2.2:12491802-12491821 MS.gene91826:intron 35.0%
TATGATTGTAGTTGGAGTTG+AGG + chr2.2:12492496-12492515 MS.gene91826:intron 35.0%
TGAATGAACATGTGTCTGTT+TGG + chr2.2:12491761-12491780 MS.gene91826:intron 35.0%
TGTTATCTTTGTGCAGGATA+TGG + chr2.2:12492805-12492824 MS.gene91826:intron 35.0%
TTATCTACTGTTGGACAGTT+TGG + chr2.2:12491801-12491820 MS.gene91826:intron 35.0%
TTTGGGTCTATGATTGTAGT+TGG + chr2.2:12492488-12492507 MS.gene91826:intron 35.0%
CGGATACTAATCATCGAAAC+CGG - chr2.2:12491536-12491555 None:intergenic 40.0%
CGTTTGAGCTTATCTACTGT+TGG + chr2.2:12491792-12491811 MS.gene91826:intron 40.0%
CTTCATTATACCCACAGTCT+AGG - chr2.2:12491671-12491690 None:intergenic 40.0%
GAACATGTGTCTGTTTGGAT+TGG + chr2.2:12491766-12491785 MS.gene91826:intron 40.0%
GATTATCGCAGCTTACTTGT+TGG + chr2.2:12491362-12491381 MS.gene91826:CDS 40.0%
GCGTAATGTTATCTTTGTGC+AGG + chr2.2:12492799-12492818 MS.gene91826:intron 40.0%
TTGCTCCTAAGTGAAGTCAA+GGG + chr2.2:12492539-12492558 MS.gene91826:CDS 40.0%
! GTTTAAGATCAGCAGCTGAA+GGG - chr2.2:12491410-12491429 None:intergenic 40.0%
! TGTTTAAGATCAGCAGCTGA+AGG - chr2.2:12491411-12491430 None:intergenic 40.0%
! TTTAAGATCAGCAGCTGAAG+GGG - chr2.2:12491409-12491428 None:intergenic 40.0%
AGAGAAGAAGGTGGAAGAGA+AGG + chr2.2:12492697-12492716 MS.gene91826:CDS 45.0%
AGCAAAGGAAGAGAAGAAGG+TGG + chr2.2:12492688-12492707 MS.gene91826:CDS 45.0%
AGCAGCAAAGGAAGAGAAGA+AGG + chr2.2:12492685-12492704 MS.gene91826:CDS 45.0%
CAACTCAATGTTGCCATCCT+CGG - chr2.2:12492522-12492541 None:intergenic 45.0%
GTTGCTCCTAAGTGAAGTCA+AGG + chr2.2:12492538-12492557 MS.gene91826:CDS 45.0%
TCTTCCACTGGCAATAAGCT+CGG - chr2.2:12492576-12492595 None:intergenic 45.0%
TGCCAGTGGAAGAGAAAAGT+TGG + chr2.2:12492583-12492602 MS.gene91826:CDS 45.0%
! AAGTTGGCTTCAGTTCCATC+CGG + chr2.2:12492599-12492618 MS.gene91826:CDS 45.0%
! AGCCAACTTTTCTCTTCCAC+TGG - chr2.2:12492588-12492607 None:intergenic 45.0%
!! AGCTTACTTGTTGGCCGTTT+TGG + chr2.2:12491371-12491390 MS.gene91826:CDS 45.0%
!! GCTTACTTGTTGGCCGTTTT+GGG + chr2.2:12491372-12491391 MS.gene91826:CDS 45.0%
CCTAAGTGAAGTCAAGGGCA+AGG + chr2.2:12492544-12492563 MS.gene91826:CDS 50.0%
CCTTGCCCTTGACTTCACTT+AGG - chr2.2:12492547-12492566 None:intergenic 50.0%
TTTGCCGAGCTTATTGCCAG+TGG + chr2.2:12492569-12492588 MS.gene91826:CDS 50.0%
! TCTTCCTTTGCTGCTTCAGC+AGG - chr2.2:12492680-12492699 None:intergenic 50.0%
!! GGATTGGTTGCCTCCCAAAA+CGG - chr2.2:12491388-12491407 None:intergenic 50.0%
!! TACTTGTTGGCCGTTTTGGG+AGG + chr2.2:12491375-12491394 MS.gene91826:CDS 50.0%
GATCAGCAGCTGAAGGGGAT+TGG - chr2.2:12491404-12491423 None:intergenic 55.0%
GTTGCTGTGTCTGCTGCAAC+TGG + chr2.2:12492632-12492651 MS.gene91826:CDS 55.0%
TGTAGTTGGAGTTGAGGCCG+AGG + chr2.2:12492502-12492521 MS.gene91826:intron 55.0%
TTGGCTTCAGTTCCATCCGG+TGG + chr2.2:12492602-12492621 MS.gene91826:CDS 55.0%
CACAGCAACAGCACCACCAC+CGG - chr2.2:12492621-12492640 None:intergenic 60.0%
GCTGTGTCTGCTGCAACTGG+AGG + chr2.2:12492635-12492654 MS.gene91826:CDS 60.0%
GCTTCAGTTCCATCCGGTGG+TGG + chr2.2:12492605-12492624 MS.gene91826:CDS 60.0%
GTGTCTGCTGCAACTGGAGG+AGG + chr2.2:12492638-12492657 MS.gene91826:CDS 60.0%
GTTGGAGTTGAGGCCGAGGA+TGG + chr2.2:12492506-12492525 MS.gene91826:intron 60.0%
TGCGCCTGCTGAAGCAGCAA+AGG + chr2.2:12492673-12492692 MS.gene91826:CDS 60.0%
GCAACAGCACCACCACCGGA+TGG - chr2.2:12492617-12492636 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 12491357 12492847 12491357 ID=MS.gene91826
chr2.2 mRNA 12491357 12492847 12491357 ID=MS.gene91826.t1;Parent=MS.gene91826
chr2.2 exon 12491357 12491444 12491357 ID=MS.gene91826.t1.exon1;Parent=MS.gene91826.t1
chr2.2 CDS 12491357 12491444 12491357 ID=cds.MS.gene91826.t1;Parent=MS.gene91826.t1
chr2.2 exon 12492507 12492733 12492507 ID=MS.gene91826.t1.exon2;Parent=MS.gene91826.t1
chr2.2 CDS 12492507 12492733 12492507 ID=cds.MS.gene91826.t1;Parent=MS.gene91826.t1
chr2.2 exon 12492821 12492847 12492821 ID=MS.gene91826.t1.exon3;Parent=MS.gene91826.t1
chr2.2 CDS 12492821 12492847 12492821 ID=cds.MS.gene91826.t1;Parent=MS.gene91826.t1
Gene Sequence

>MS.gene91826

ATGAAGATTATCGCAGCTTACTTGTTGGCCGTTTTGGGAGGCAACCAATCCCCTTCAGCTGCTGATCTTAAACAAATTCTTGGATCAGGTTCGTATAAATCCCAATTTAATCTTTAATCTTGTTCATTTTGTGTTTTTTATTTTATTTTATTATTACGCATTTTTTGTTTGTTTTTCCGGTTTCGATGATTAGTATCCGAATTATTTTAGTAGATCCATAAGTAAAAGTGTAGAATATGAATGTACTTTCAATTAGAGATTGCGAGTATACTAAAGTTTAGTTTTTTCTTTTTTTGCAAAAAATAATCAATCCTAGACTGTGGGTATAATGAAGTGAATGTTTTTTGCTAATTTAATTCAAGTTTAGGATTTGGTTAATTTATAATCGGATCAATTAAAATCGATGAATGAACATGTGTCTGTTTGGATTGGACTCGTTTGAGCTTATCTACTGTTGGACAGTTTGGGAGAATTTATATGAAAACATCTTATAACAATTTTTTTGCAAAAATAATTTTAATTCAAGTTTGGGTTGGGATTTGTTTAACTTTAATTCAAGTTTGGGATTTGTTTCACTGATATTCATTTCAATGAAAATTGATCAAAATATTGGTTTATTTGGATTGGACTTATTTGAGCTTATCTACTGTTAGACTGTTAAGGAGAATTTATGAAAACATACAATTTTTCATAAGTTTTTTTCAAATACAGCTTATATTAAAACAACTTATAGCAAATACAAAAACAAGTTAACATTTTTTTAATCTTTTGCTATTCAAATAGTTTATGCAAATTCATAGGCTCTTATCATGATATAAGTGCTTGTGCTATAAGCTGTAATAAGCTGTTTAATCAAACAGCCCCATATATTGGTTTGATTTTAATGCTTAGTTTTATACATTGTTTGGTAATATTTACGAAGTTTTCATTTTTACAGATGTATTAGGTTTTTGTTGAATTTTCAATCAGTAAATCGTGCATATGTTTGTCTGCTTTTTCTGTATATTTTTTTACTGTTGAAGGAAAAATGGTTTTCTTTTTCAGAAAATGATGTAATATTTTTTTACACTATGAAGATGAATTAAGAGATTAGAACATTCAATTTTGTGTGTAAAAAAAAGTGACTTTATTTTTGGGTCTATGATTGTAGTTGGAGTTGAGGCCGAGGATGGCAACATTGAGTTGCTCCTAAGTGAAGTCAAGGGCAAGGACTTTGCCGAGCTTATTGCCAGTGGAAGAGAAAAGTTGGCTTCAGTTCCATCCGGTGGTGGTGCTGTTGCTGTGTCTGCTGCAACTGGAGGAGGTGCTGCAGCTGCTGCGCCTGCTGAAGCAGCAAAGGAAGAGAAGAAGGTGGAAGAGAAGGAAGAATCCGATGATGTAAGTTTCAAAATTTATAGTAGTATTGTTTGTTACTTGGTAAATTCATGACTATGCTAATGTTTGCGTAATGTTATCTTTGTGCAGGATATGGGATTCAGCTTATTTGATTAA

Protein sequence

>MS.gene91826.t1

MKIIAAYLLAVLGGNQSPSAADLKQILGSVGVEAEDGNIELLLSEVKGKDFAELIASGREKLASVPSGGGAVAVSAATGGGAAAAAPAEAAKEEKKVEEKEESDDDMGFSLFD