AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059022


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059022.t1 MTR_7g099390 66.892 148 34 5 1 144 1 137 4.91e-59 179
MS.gene059022.t1 MTR_1g069235 92.754 138 7 1 11 145 11 148 8.63e-55 169
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059022.t1 AT2G20260 62.329 146 46 3 5 144 2 144 1.60e-44 143
MS.gene059022.t1 AT4G28750 58.621 145 50 3 5 144 2 141 9.12e-35 118

Find 50 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTGGCGTAGTTCACTTTC+TGG 0.135317 1.2:-52054615 None:intergenic
CCAATATTGTTGGACTTTAA+AGG 0.153877 1.2:-52053711 None:intergenic
ATTGGTGGTGGCTTGGGTTT+AGG 0.254441 1.2:-52053831 None:intergenic
GGGGCCAATTGGTGGTGGCT+TGG 0.265521 1.2:-52053838 None:intergenic
GGGCCAATTGGTGGTGGCTT+GGG 0.275299 1.2:-52053837 None:intergenic
CAATATTGTTGGACTTTAAA+GGG 0.305571 1.2:-52053710 None:intergenic
GTGGAGGCAGCAGGTGCAGC+CGG 0.318522 1.2:-52053780 None:intergenic
CCTTTAAAGTCCAACAATAT+TGG 0.324065 1.2:+52053711 MS.gene059022:CDS
CTTCTTCTAGACTTGTTGTC+AGG 0.342347 1.2:+52053739 MS.gene059022:CDS
CTCAACAGGTGAAGATTCTT+AGG 0.381804 1.2:+52054403 MS.gene059022:intron
GAACCTCTCTTGGGGCCAAT+TGG 0.393160 1.2:-52053849 None:intergenic
CTCTTGGGGCCAATTGGTGG+TGG 0.405813 1.2:-52053843 None:intergenic
TGGCCCCAAGAGAGGTTCTA+AGG 0.412793 1.2:+52053854 MS.gene059022:CDS
ACGACAGGGTAGCGAGTCTT+GGG 0.413817 1.2:-52054583 None:intergenic
AATTACCTTAGAACCTCTCT+TGG 0.417720 1.2:-52053859 None:intergenic
AGAAGAAGAACCAATATTGT+TGG 0.421736 1.2:-52053721 None:intergenic
TGCAGCCGGGGCAGCCTCAT+CGG 0.425226 1.2:-52053766 None:intergenic
ATCGACAAATAACTATGCTT+TGG 0.426234 1.2:+52054639 MS.gene059022:CDS
CCTTGATGAAGTTGTGTTGT+TGG 0.428946 1.2:-52053670 None:intergenic
GGTGGCTTGGGTTTAGGAGT+AGG 0.430314 1.2:-52053825 None:intergenic
CCTCTCTTGGGGCCAATTGG+TGG 0.430678 1.2:-52053846 None:intergenic
GCTGGAGCAGTGGAGGCAGC+AGG 0.442829 1.2:-52053789 None:intergenic
TTCTGGAATCGAACCACGAC+AGG 0.446735 1.2:-52054598 None:intergenic
ATTACCTTAGAACCTCTCTT+GGG 0.450802 1.2:-52053858 None:intergenic
CACGACAGGGTAGCGAGTCT+TGG 0.452960 1.2:-52054584 None:intergenic
GGCAACCGATGAGGCTGCCC+CGG 0.460044 1.2:+52053761 MS.gene059022:CDS
GCTGCCTCCACTGCTCCAGC+TGG 0.461366 1.2:+52053792 MS.gene059022:CDS
AAACCCAAGCCACCACCAAT+TGG 0.463084 1.2:+52053834 MS.gene059022:CDS
GGAGGCAGCAGGTGCAGCCG+GGG 0.477518 1.2:-52053778 None:intergenic
TTCTTCTAGACTTGTTGTCA+GGG 0.490708 1.2:+52053740 MS.gene059022:CDS
GTAGGAGCAGCATCACCAGC+TGG 0.494338 1.2:-52053807 None:intergenic
TGGAGGCAGCAGGTGCAGCC+GGG 0.495138 1.2:-52053779 None:intergenic
AGCATGGCATCAGCAGCTAC+TGG 0.498675 1.2:+52053621 MS.gene059022:CDS
ATCACCAGCTGGAGCAGTGG+AGG 0.508802 1.2:-52053796 None:intergenic
AGCATCACCAGCTGGAGCAG+TGG 0.519718 1.2:-52053799 None:intergenic
TCCTACTGGTACAAAGGCAC+TGG 0.520039 1.2:+52054432 MS.gene059022:CDS
ATAGTTATTTGTCGATACAT+TGG 0.524557 1.2:-52054632 None:intergenic
TTCTTAGGAAGGAATCCTAC+TGG 0.542855 1.2:+52054418 MS.gene059022:CDS
ACAGGTGAAGATTCTTAGGA+AGG 0.576965 1.2:+52054407 MS.gene059022:intron
AAGGAATCCTACTGGTACAA+AGG 0.577304 1.2:+52054426 MS.gene059022:CDS
CCACCAATTGGCCCCAAGAG+AGG 0.582857 1.2:+52053846 MS.gene059022:CDS
CAAGACTCGCTACCCTGTCG+TGG 0.613483 1.2:+52054585 MS.gene059022:CDS
CCAACAACACAACTTCATCA+AGG 0.613961 1.2:+52053670 MS.gene059022:CDS
AGTCATGGCTAGCAGCAGCA+TGG 0.629935 1.2:+52053605 None:intergenic
TGTTGTCAGGGCAACCGATG+AGG 0.640147 1.2:+52053752 MS.gene059022:CDS
CTTTAAAGGGAACATCAACA+TGG 0.644075 1.2:-52053697 None:intergenic
TTACCTTAGAACCTCTCTTG+GGG 0.647944 1.2:-52053857 None:intergenic
TCCAGTGCCTTTGTACCAGT+AGG 0.656987 1.2:-52054433 None:intergenic
CGACAGGGTAGCGAGTCTTG+GGG 0.696532 1.2:-52054582 None:intergenic
TCTGGAATCGAACCACGACA+GGG 0.707301 1.2:-52054597 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTATGAGGAAAAAACTTAA+AGG - chr1.2:52054512-52054531 None:intergenic 20.0%
!!! AAGATATATTAGAGTGTTTT+TGG + chr1.2:52054086-52054105 MS.gene059022:intron 20.0%
!!! GTTTAGTTTGAATTTACTTA+TGG + chr1.2:52053970-52053989 MS.gene059022:intron 20.0%
! ATAGTTATTTGTCGATACAT+TGG - chr1.2:52054635-52054654 None:intergenic 25.0%
! ATTTCAACTAAAACTCACTT+GGG + chr1.2:52054130-52054149 MS.gene059022:intron 25.0%
! CAATATTGTTGGACTTTAAA+GGG - chr1.2:52053713-52053732 None:intergenic 25.0%
! TAGCTAAAGATAGTTGAAAT+AGG - chr1.2:52054270-52054289 None:intergenic 25.0%
! TATTTCAACTAAAACTCACT+TGG + chr1.2:52054129-52054148 MS.gene059022:intron 25.0%
! TTCTTGTTGCAATTATACAT+TGG + chr1.2:52053948-52053967 MS.gene059022:intron 25.0%
!!! AAGTGAGTTTTAGTTGAAAT+AGG - chr1.2:52054130-52054149 None:intergenic 25.0%
AGAAGAAGAACCAATATTGT+TGG - chr1.2:52053724-52053743 None:intergenic 30.0%
ATCGACAAATAACTATGCTT+TGG + chr1.2:52054639-52054658 MS.gene059022:CDS 30.0%
CCAATATTGTTGGACTTTAA+AGG - chr1.2:52053714-52053733 None:intergenic 30.0%
GAGGAAAAAACTTAAAGGTT+TGG - chr1.2:52054507-52054526 None:intergenic 30.0%
TGATACTACTTATGACTTTG+TGG + chr1.2:52054044-52054063 MS.gene059022:intron 30.0%
! TTGGTTGAAATTTGAGTTTG+AGG - chr1.2:52054488-52054507 None:intergenic 30.0%
!! CCTTTAAAGTCCAACAATAT+TGG + chr1.2:52053711-52053730 MS.gene059022:CDS 30.0%
!!! GTTTTTTCCTCATAATCCAT+TGG + chr1.2:52054516-52054535 MS.gene059022:intron 30.0%
AATTACCTTAGAACCTCTCT+TGG - chr1.2:52053862-52053881 None:intergenic 35.0%
ATTACCTTAGAACCTCTCTT+GGG - chr1.2:52053861-52053880 None:intergenic 35.0%
CTAAACTAGTCCACCTAAAT+TGG - chr1.2:52054230-52054249 None:intergenic 35.0%
GATATTTCTTTGCACTCAAC+AGG + chr1.2:52054389-52054408 MS.gene059022:intron 35.0%
! CTATCTTTAGCTAGTCTACA+CGG + chr1.2:52054277-52054296 MS.gene059022:intron 35.0%
! CTTTAAAGGGAACATCAACA+TGG - chr1.2:52053700-52053719 None:intergenic 35.0%
! GTAACTCAGCTCTTGTTTAA+CGG + chr1.2:52054538-52054557 MS.gene059022:intron 35.0%
!! TGAGTTACCAATGGATTATG+AGG - chr1.2:52054526-52054545 None:intergenic 35.0%
!! TTCTTCTAGACTTGTTGTCA+GGG + chr1.2:52053740-52053759 MS.gene059022:CDS 35.0%
AACAAGAGCTGAGTTACCAA+TGG - chr1.2:52054535-52054554 None:intergenic 40.0%
AAGGAATCCTACTGGTACAA+AGG + chr1.2:52054426-52054445 MS.gene059022:CDS 40.0%
AATCTCCGTAGTGCCAATTT+AGG + chr1.2:52054214-52054233 MS.gene059022:intron 40.0%
ACAGGTGAAGATTCTTAGGA+AGG + chr1.2:52054407-52054426 MS.gene059022:intron 40.0%
ATAACCGGTCTAAATTGACG+AGG + chr1.2:52054320-52054339 MS.gene059022:intron 40.0%
CAACTAAAACTCACTTGGGT+TGG + chr1.2:52054134-52054153 MS.gene059022:intron 40.0%
CCAACAACACAACTTCATCA+AGG + chr1.2:52053670-52053689 MS.gene059022:CDS 40.0%
CCTTGATGAAGTTGTGTTGT+TGG - chr1.2:52053673-52053692 None:intergenic 40.0%
CTCAACAGGTGAAGATTCTT+AGG + chr1.2:52054403-52054422 MS.gene059022:intron 40.0%
TAACCGGTCTAAATTGACGA+GGG + chr1.2:52054321-52054340 MS.gene059022:intron 40.0%
TTACCTTAGAACCTCTCTTG+GGG - chr1.2:52053860-52053879 None:intergenic 40.0%
TTCTTAGGAAGGAATCCTAC+TGG + chr1.2:52054418-52054437 MS.gene059022:CDS 40.0%
!! CTTCTTCTAGACTTGTTGTC+AGG + chr1.2:52053739-52053758 MS.gene059022:CDS 40.0%
!! TCGGTGATTAGTCTCATAAC+CGG + chr1.2:52054305-52054324 MS.gene059022:intron 40.0%
AGGCCTCAAGTCAATATCAC+CGG - chr1.2:52054161-52054180 None:intergenic 45.0%
CATTGGCGTAGTTCACTTTC+TGG - chr1.2:52054618-52054637 None:intergenic 45.0%
GTCCACCTAAATTGGCACTA+CGG - chr1.2:52054222-52054241 None:intergenic 45.0%
TCACCCTCGTCAATTTAGAC+CGG - chr1.2:52054327-52054346 None:intergenic 45.0%
! CGGATTTCTCTTTGTTGTGC+AGG + chr1.2:52054558-52054577 MS.gene059022:intron 45.0%
! GCTAGTCTACACGGTCAAAT+CGG + chr1.2:52054286-52054305 MS.gene059022:intron 45.0%
AAACCCAAGCCACCACCAAT+TGG + chr1.2:52053834-52053853 MS.gene059022:CDS 50.0%
CTCCGTAGTGCCAATTTAGG+TGG + chr1.2:52054217-52054236 MS.gene059022:intron 50.0%
GGCCTCAAGTCAATATCACC+GGG - chr1.2:52054160-52054179 None:intergenic 50.0%
TCCAGTGCCTTTGTACCAGT+AGG - chr1.2:52054436-52054455 None:intergenic 50.0%
TCGAACCTGAGACCTTGAAG+AGG - chr1.2:52054195-52054214 None:intergenic 50.0%
! TCCTACTGGTACAAAGGCAC+TGG + chr1.2:52054432-52054451 MS.gene059022:CDS 50.0%
! TCTGGAATCGAACCACGACA+GGG - chr1.2:52054600-52054619 None:intergenic 50.0%
! TGAGAGTGTGCTCCTCTTCA+AGG + chr1.2:52054180-52054199 MS.gene059022:intron 50.0%
! TTGAAGAGGAGCACACTCTC+AGG - chr1.2:52054181-52054200 None:intergenic 50.0%
!! AAAACTCACTTGGGTTGGCC+CGG + chr1.2:52054139-52054158 MS.gene059022:intron 50.0%
!! ATTGGTGGTGGCTTGGGTTT+AGG - chr1.2:52053834-52053853 None:intergenic 50.0%
!! TTCTGGAATCGAACCACGAC+AGG - chr1.2:52054601-52054620 None:intergenic 50.0%
ACGACAGGGTAGCGAGTCTT+GGG - chr1.2:52054586-52054605 None:intergenic 55.0%
AGCATGGCATCAGCAGCTAC+TGG + chr1.2:52053621-52053640 MS.gene059022:CDS 55.0%
GAACCTCTCTTGGGGCCAAT+TGG - chr1.2:52053852-52053871 None:intergenic 55.0%
GTGCTCCTCTTCAAGGTCTC+AGG + chr1.2:52054187-52054206 MS.gene059022:intron 55.0%
TGGCCCCAAGAGAGGTTCTA+AGG + chr1.2:52053854-52053873 MS.gene059022:CDS 55.0%
TGTTGTCAGGGCAACCGATG+AGG + chr1.2:52053752-52053771 MS.gene059022:CDS 55.0%
! GGTGGCTTGGGTTTAGGAGT+AGG - chr1.2:52053828-52053847 None:intergenic 55.0%
!! GGCCCGGTGATATTGACTTG+AGG + chr1.2:52054155-52054174 MS.gene059022:intron 55.0%
AGCATCACCAGCTGGAGCAG+TGG - chr1.2:52053802-52053821 None:intergenic 60.0%
ATCACCAGCTGGAGCAGTGG+AGG - chr1.2:52053799-52053818 None:intergenic 60.0%
CAAGACTCGCTACCCTGTCG+TGG + chr1.2:52054585-52054604 MS.gene059022:CDS 60.0%
CACGACAGGGTAGCGAGTCT+TGG - chr1.2:52054587-52054606 None:intergenic 60.0%
CCACCAATTGGCCCCAAGAG+AGG + chr1.2:52053846-52053865 MS.gene059022:CDS 60.0%
CCTCTCTTGGGGCCAATTGG+TGG - chr1.2:52053849-52053868 None:intergenic 60.0%
CGACAGGGTAGCGAGTCTTG+GGG - chr1.2:52054585-52054604 None:intergenic 60.0%
CTCTTGGGGCCAATTGGTGG+TGG - chr1.2:52053846-52053865 None:intergenic 60.0%
GTAGGAGCAGCATCACCAGC+TGG - chr1.2:52053810-52053829 None:intergenic 60.0%
!! GGGCCAATTGGTGGTGGCTT+GGG - chr1.2:52053840-52053859 None:intergenic 60.0%
!! GGGGCCAATTGGTGGTGGCT+TGG - chr1.2:52053841-52053860 None:intergenic 65.0%
GCTGCCTCCACTGCTCCAGC+TGG + chr1.2:52053792-52053811 MS.gene059022:CDS 70.0%
GCTGGAGCAGTGGAGGCAGC+AGG - chr1.2:52053792-52053811 None:intergenic 70.0%
GGCAACCGATGAGGCTGCCC+CGG + chr1.2:52053761-52053780 MS.gene059022:CDS 70.0%
GTGGAGGCAGCAGGTGCAGC+CGG - chr1.2:52053783-52053802 None:intergenic 70.0%
TGCAGCCGGGGCAGCCTCAT+CGG - chr1.2:52053769-52053788 None:intergenic 70.0%
TGGAGGCAGCAGGTGCAGCC+GGG - chr1.2:52053782-52053801 None:intergenic 70.0%
GGAGGCAGCAGGTGCAGCCG+GGG - chr1.2:52053781-52053800 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 52053609 52054684 52053609 ID=MS.gene059022
chr1.2 mRNA 52053609 52054684 52053609 ID=MS.gene059022.t1;Parent=MS.gene059022
chr1.2 exon 52053609 52053875 52053609 ID=MS.gene059022.t1.exon1;Parent=MS.gene059022.t1
chr1.2 CDS 52053609 52053875 52053609 ID=cds.MS.gene059022.t1;Parent=MS.gene059022.t1
chr1.2 exon 52054411 52054476 52054411 ID=MS.gene059022.t1.exon2;Parent=MS.gene059022.t1
chr1.2 CDS 52054411 52054476 52054411 ID=cds.MS.gene059022.t1;Parent=MS.gene059022.t1
chr1.2 exon 52054580 52054684 52054580 ID=MS.gene059022.t1.exon3;Parent=MS.gene059022.t1
chr1.2 CDS 52054580 52054684 52054580 ID=cds.MS.gene059022.t1;Parent=MS.gene059022.t1
Gene Sequence

>MS.gene059022

ATGGCTAGCAGCAGCATGGCATCAGCAGCTACTGGATTTTTGTTGTCACTTAATGTTGCTTCCAACAACACAACTTCATCAAGGAGTACCATGTTGATGTTCCCTTTAAAGTCCAACAATATTGGTTCTTCTTCTTCTAGACTTGTTGTCAGGGCAACCGATGAGGCTGCCCCGGCTGCACCTGCTGCCTCCACTGCTCCAGCTGGTGATGCTGCTCCTACTCCTAAACCCAAGCCACCACCAATTGGCCCCAAGAGAGGTTCTAAGGTAATTCATTTCATTATCATATTAAGATAGACTACATAGAATTATATATTTAAAATTTTGTATCAAAGTAGTTTCTTGTTGCAATTATACATTGGTTTAGTTTGAATTTACTTATGGTGTATCAAAGCTTTTCAATTCAAATTAATTTATGATTCTTCATTTATAAAATGATACTACTTATGACTTTGTGGATTCATAGATCTTCATGAAAAGATATATTAGAGTGTTTTTGGAAACATTAAGATGCATAACCTATTTCAACTAAAACTCACTTGGGTTGGCCCGGTGATATTGACTTGAGGCCTGAGAGTGTGCTCCTCTTCAAGGTCTCAGGTTCGAATCTCCGTAGTGCCAATTTAGGTGGACTAGTTTAGCTTCTTAAAAAAAATTACCTATTTCAACTATCTTTAGCTAGTCTACACGGTCAAATCGGTGATTAGTCTCATAACCGGTCTAAATTGACGAGGGTGAAAATTATATTGAACTAGCTCTCTAGCAACAAGTATAGCTTATGATATTTCTTTGCACTCAACAGGTGAAGATTCTTAGGAAGGAATCCTACTGGTACAAAGGCACTGGATCAGTTGTTGCTGTTGATCAAGTGAGTGACCTCAAACTCAAATTTCAACCAAACCTTTAAGTTTTTTCCTCATAATCCATTGGTAACTCAGCTCTTGTTTAACGGATTTCTCTTTGTTGTGCAGGACCCCAAGACTCGCTACCCTGTCGTGGTTCGATTCCAGAAAGTGAACTACGCCAATGTATCGACAAATAACTATGCTTTGGATGAGATTGAAGAAGTTGTTTAA

Protein sequence

>MS.gene059022.t1

MASSSMASAATGFLLSLNVASNNTTSSRSTMLMFPLKSNNIGSSSSRLVVRATDEAAPAAPAASTAPAGDAAPTPKPKPPPIGPKRGSKVKILRKESYWYKGTGSVVAVDQDPKTRYPVVVRFQKVNYANVSTNNYALDEIEEVV