AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene058175


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058175.t1 MTR_2g035170 99.363 157 1 0 1 157 1 157 2.37e-112 315
MS.gene058175.t1 MTR_2g035100 60.510 157 62 0 1 157 1 157 3.63e-63 191
MS.gene058175.t1 MTR_2g035105 59.236 157 64 0 1 157 1 157 6.68e-62 188
MS.gene058175.t1 MTR_2g035150 58.599 157 65 0 1 157 1 157 9.68e-62 187
MS.gene058175.t1 MTR_2g035120 57.962 157 66 0 1 157 1 157 1.55e-59 182
MS.gene058175.t1 MTR_2g035130 56.688 157 68 0 1 157 1 157 3.96e-58 178
MS.gene058175.t1 MTR_6g033450 54.140 157 72 0 1 157 1 157 1.75e-54 169
MS.gene058175.t1 MTR_4g120970 54.140 157 72 0 1 157 1 157 1.75e-54 169
MS.gene058175.t1 MTR_2g035320 48.408 157 81 0 1 157 1 157 8.37e-50 157
MS.gene058175.t1 MTR_2g035190 47.771 157 82 0 1 157 1 157 3.07e-48 153
MS.gene058175.t1 MTR_2g035210 47.771 157 82 0 1 157 1 157 1.01e-47 152
MS.gene058175.t1 MTR_2g035220 49.315 146 74 0 12 157 12 157 3.32e-47 150
MS.gene058175.t1 MTR_2g035320 50.000 100 50 0 58 157 23 122 8.93e-31 107
MS.gene058175.t1 MTR_2g435310 36.184 152 94 2 5 155 7 156 2.83e-30 107
MS.gene058175.t1 MTR_4g120760 32.692 156 104 1 1 155 1 156 1.60e-28 103
MS.gene058175.t1 MTR_4g120760 32.692 156 104 1 1 155 1 156 1.77e-28 103
MS.gene058175.t1 MTR_4g120950 39.752 161 90 5 1 157 1 158 2.86e-25 95.1
MS.gene058175.t1 MTR_4g120940 56.164 73 32 0 85 157 47 119 1.37e-20 82.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 46 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGTACAACTTTAGCATTAT+TGG 0.213546 2.1:-57684057 MS.gene058175:CDS
TGTACAACTTTAGCATTATT+GGG 0.243931 2.1:-57684056 MS.gene058175:CDS
TGGATCACTTCCACAAGCTT+TGG 0.317240 2.1:+57684696 None:intergenic
ATTAAACACATTCAGTAATC+AGG 0.345127 2.1:+57683832 None:intergenic
CATTTGGTCCTTCAACCAAT+TGG 0.345692 2.1:+57683989 None:intergenic
GGATCACTTCCACAAGCTTT+GGG 0.357297 2.1:+57684697 None:intergenic
ATGGCTTTGAAGAGCCTAAC+AGG 0.389381 2.1:+57684744 None:intergenic
CTGCTGCTGTTCCTCCTGTT+AGG 0.389483 2.1:-57684758 MS.gene058175:CDS
CTTCAGTGAACTCAATACTT+TGG 0.401346 2.1:+57684676 None:intergenic
ATCAACATGTACATTCCTAA+TGG 0.402440 2.1:+57683960 None:intergenic
ACTTAAATTATAATCACCTT+TGG 0.409104 2.1:+57683930 None:intergenic
TTCCTAATGGACCCTCCATT+TGG 0.409557 2.1:+57683973 None:intergenic
GCTTGTTGAAGGGTACCTTT+TGG 0.410083 2.1:-57683860 MS.gene058175:CDS
CACTCTGTGTAGCACATACT+TGG 0.421047 2.1:+57684104 None:intergenic
CTTCCACAAGCTTTGGGAAG+AGG 0.431558 2.1:+57684703 None:intergenic
AGTGAGGAGGAGTTGAAAGC+TGG 0.432811 2.1:-57683910 MS.gene058175:CDS
GGACTTGTAAAGCTTGTTGA+AGG 0.441945 2.1:-57683871 MS.gene058175:CDS
GACCAAATGGAGGGTCCATT+AGG 0.448487 2.1:-57683975 MS.gene058175:CDS
GCTGGTAAAGCAAAGGTTGA+AGG 0.449190 2.1:-57683892 MS.gene058175:CDS
AAGAAGCTCACCACAGTTGA+AGG 0.458485 2.1:-57684630 MS.gene058175:intron
ACTGAAGGAACTGGTGGTGC+TGG 0.463110 2.1:-57684660 MS.gene058175:CDS
AGTAATCAGGATTTGCCAAA+AGG 0.469472 2.1:+57683845 None:intergenic
CTAACAGGAGGAACAGCAGC+AGG 0.474433 2.1:+57684759 None:intergenic
AGTCTCATTCAAGAGCCAAT+TGG 0.492931 2.1:-57684004 MS.gene058175:CDS
TTCAAGAGCCAATTGGTTGA+AGG 0.493896 2.1:-57683997 MS.gene058175:CDS
ATTGAGTTCACTGAAGGAAC+TGG 0.500969 2.1:-57684669 MS.gene058175:CDS
TAACCTCTTCCCAAAGCTTG+TGG 0.518650 2.1:-57684706 MS.gene058175:CDS
CACTGGATTGGCTGACACAT+TGG 0.522999 2.1:-57684031 MS.gene058175:CDS
TGATTATAATTTAAGTGAGG+AGG 0.547716 2.1:-57683923 MS.gene058175:CDS
CAATTGGTTGAAGGACCAAA+TGG 0.561796 2.1:-57683988 MS.gene058175:CDS
AACAGGAGGAACAGCAGCAG+GGG 0.564864 2.1:+57684761 None:intergenic
GTACAACTTTAGCATTATTG+GGG 0.564914 2.1:-57684055 MS.gene058175:CDS
CATCATGGGTGTACAAACTC+AGG 0.570571 2.1:-57684793 None:intergenic
CAAAGTATTGAGTTCACTGA+AGG 0.574960 2.1:-57684675 MS.gene058175:CDS
TAATTACTGACCTTCAACTG+TGG 0.582513 2.1:+57684620 None:intergenic
TAACAGGAGGAACAGCAGCA+GGG 0.612336 2.1:+57684760 None:intergenic
TTGGTTGAAGGACCAAATGG+AGG 0.621672 2.1:-57683985 MS.gene058175:CDS
GACTTGTAAAGCTTGTTGAA+GGG 0.631158 2.1:-57683870 MS.gene058175:CDS
TGGTTGAAGGACCAAATGGA+GGG 0.640692 2.1:-57683984 MS.gene058175:CDS
GTTGAAAGCTGGTAAAGCAA+AGG 0.651458 2.1:-57683899 MS.gene058175:CDS
CAAGTATGTGCTACACAGAG+TGG 0.654201 2.1:-57684103 MS.gene058175:CDS
AGGTGATTATAATTTAAGTG+AGG 0.654716 2.1:-57683926 MS.gene058175:CDS
TACAACTTTAGCATTATTGG+GGG 0.677045 2.1:-57684054 MS.gene058175:CDS
GTTATGAAACTCTAATGACA+TGG 0.696174 2.1:+57684725 None:intergenic
GAGTTCACTGAAGGAACTGG+TGG 0.720921 2.1:-57684666 MS.gene058175:CDS
GCTTTGAAGAGCCTAACAGG+AGG 0.746272 2.1:+57684747 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAAAAAATAATGATCA+TGG + chr2.1:57684345-57684364 None:intergenic 10.0%
!! AGTTAGTTAAATTAAATTAA+TGG - chr2.1:57684465-57684484 MS.gene058175:intron 10.0%
!!! ATTTTCTCTTATTTTAATTG+AGG + chr2.1:57684121-57684140 None:intergenic 15.0%
!!! TTTTTATAGAAAAATGTTAG+TGG - chr2.1:57684365-57684384 MS.gene058175:intron 15.0%
!! ACTTAAATTATAATCACCTT+TGG + chr2.1:57684705-57684724 None:intergenic 20.0%
!! TGGTTAATTCGTTAAATTAA+AGG - chr2.1:57684385-57684404 MS.gene058175:intron 20.0%
!! TTCGTTAAATTAAAGGAATA+TGG - chr2.1:57684392-57684411 MS.gene058175:intron 20.0%
!!! TATTTTAATTCCATGACTTT+AGG - chr2.1:57684042-57684061 MS.gene058175:CDS 20.0%
! AAGTTTACAACGATATAAGT+AGG + chr2.1:57684228-57684247 None:intergenic 25.0%
! AGGTGATTATAATTTAAGTG+AGG - chr2.1:57684706-57684725 MS.gene058175:CDS 25.0%
! ATATAAGTAGGTGCAAATTA+TGG + chr2.1:57684216-57684235 None:intergenic 25.0%
! TGATTATAATTTAAGTGAGG+AGG - chr2.1:57684709-57684728 MS.gene058175:CDS 25.0%
! TGTACAACTTTAGCATTATT+GGG - chr2.1:57684576-57684595 MS.gene058175:intron 25.0%
!!! CATGTTGATTATTTTACCAA+AGG - chr2.1:57684686-57684705 MS.gene058175:CDS 25.0%
ATCAACATGTACATTCCTAA+TGG + chr2.1:57684675-57684694 None:intergenic 30.0%
GTACAACTTTAGCATTATTG+GGG - chr2.1:57684577-57684596 MS.gene058175:intron 30.0%
GTGTACAACTTTAGCATTAT+TGG - chr2.1:57684575-57684594 MS.gene058175:intron 30.0%
GTTATGAAACTCTAATGACA+TGG + chr2.1:57683910-57683929 None:intergenic 30.0%
TACAACTTTAGCATTATTGG+GGG - chr2.1:57684578-57684597 MS.gene058175:intron 30.0%
TGAGTGAATTTGATGAATAC+AGG - chr2.1:57684497-57684516 MS.gene058175:intron 30.0%
! GTCTTACTTGTGATGATTTT+TGG + chr2.1:57684288-57684307 None:intergenic 30.0%
AGACTCAAATCCTAAAGTCA+TGG + chr2.1:57684055-57684074 None:intergenic 35.0%
AGTAATCAGGATTTGCCAAA+AGG + chr2.1:57684790-57684809 None:intergenic 35.0%
CTTCAGTGAACTCAATACTT+TGG + chr2.1:57683959-57683978 None:intergenic 35.0%
GTGAATTTGATGAATACAGG+TGG - chr2.1:57684500-57684519 MS.gene058175:intron 35.0%
TAATTACTGACCTTCAACTG+TGG + chr2.1:57684015-57684034 None:intergenic 35.0%
! TCATTTTACAGTTGTCTCAG+AGG - chr2.1:57684168-57684187 MS.gene058175:intron 35.0%
!! CAAAGTATTGAGTTCACTGA+AGG - chr2.1:57683957-57683976 MS.gene058175:CDS 35.0%
!! GACTTGTAAAGCTTGTTGAA+GGG - chr2.1:57684762-57684781 MS.gene058175:CDS 35.0%
AGTCTCATTCAAGAGCCAAT+TGG - chr2.1:57684628-57684647 MS.gene058175:intron 40.0%
ATTGAGTTCACTGAAGGAAC+TGG - chr2.1:57683963-57683982 MS.gene058175:CDS 40.0%
CAATTGGTTGAAGGACCAAA+TGG - chr2.1:57684644-57684663 MS.gene058175:CDS 40.0%
CATTTGGTCCTTCAACCAAT+TGG + chr2.1:57684646-57684665 None:intergenic 40.0%
CTTTGTTAGAGTGACAAGTG+AGG - chr2.1:57684073-57684092 MS.gene058175:CDS 40.0%
GTTGAAAGCTGGTAAAGCAA+AGG - chr2.1:57684733-57684752 MS.gene058175:CDS 40.0%
TTCAAGAGCCAATTGGTTGA+AGG - chr2.1:57684635-57684654 MS.gene058175:CDS 40.0%
!! GGACTTGTAAAGCTTGTTGA+AGG - chr2.1:57684761-57684780 MS.gene058175:CDS 40.0%
AAGAAGCTCACCACAGTTGA+AGG - chr2.1:57684002-57684021 MS.gene058175:CDS 45.0%
CAAGTATGTGCTACACAGAG+TGG - chr2.1:57684529-57684548 MS.gene058175:intron 45.0%
CACTCTGTGTAGCACATACT+TGG + chr2.1:57684531-57684550 None:intergenic 45.0%
GCTGGTAAAGCAAAGGTTGA+AGG - chr2.1:57684740-57684759 MS.gene058175:CDS 45.0%
GGATCACTTCCACAAGCTTT+GGG + chr2.1:57683938-57683957 None:intergenic 45.0%
TAACCTCTTCCCAAAGCTTG+TGG - chr2.1:57683926-57683945 MS.gene058175:CDS 45.0%
TGGATCACTTCCACAAGCTT+TGG + chr2.1:57683939-57683958 None:intergenic 45.0%
TGGTTGAAGGACCAAATGGA+GGG - chr2.1:57684648-57684667 MS.gene058175:CDS 45.0%
TTGGTTGAAGGACCAAATGG+AGG - chr2.1:57684647-57684666 MS.gene058175:CDS 45.0%
! TTCCTAATGGACCCTCCATT+TGG + chr2.1:57684662-57684681 None:intergenic 45.0%
! TTTAGCATTATTGGGGGCAC+TGG - chr2.1:57684584-57684603 MS.gene058175:intron 45.0%
!! ATGGCTTTGAAGAGCCTAAC+AGG + chr2.1:57683891-57683910 None:intergenic 45.0%
!!! GCTTGTTGAAGGGTACCTTT+TGG - chr2.1:57684772-57684791 MS.gene058175:CDS 45.0%
AGTGAGGAGGAGTTGAAAGC+TGG - chr2.1:57684722-57684741 MS.gene058175:CDS 50.0%
GACCAAATGGAGGGTCCATT+AGG - chr2.1:57684657-57684676 MS.gene058175:CDS 50.0%
GAGTTCACTGAAGGAACTGG+TGG - chr2.1:57683966-57683985 MS.gene058175:CDS 50.0%
TAACAGGAGGAACAGCAGCA+GGG + chr2.1:57683875-57683894 None:intergenic 50.0%
!! CACTGGATTGGCTGACACAT+TGG - chr2.1:57684601-57684620 MS.gene058175:intron 50.0%
!! CATTATTGGGGGCACTGGAT+TGG - chr2.1:57684589-57684608 MS.gene058175:intron 50.0%
!! CTTCCACAAGCTTTGGGAAG+AGG + chr2.1:57683932-57683951 None:intergenic 50.0%
!! GCTTTGAAGAGCCTAACAGG+AGG + chr2.1:57683888-57683907 None:intergenic 50.0%
AACAGGAGGAACAGCAGCAG+GGG + chr2.1:57683874-57683893 None:intergenic 55.0%
CTAACAGGAGGAACAGCAGC+AGG + chr2.1:57683876-57683895 None:intergenic 55.0%
CTGCTGCTGTTCCTCCTGTT+AGG - chr2.1:57683874-57683893 MS.gene058175:CDS 55.0%
! ACTGAAGGAACTGGTGGTGC+TGG - chr2.1:57683972-57683991 MS.gene058175:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 57683843 57684811 57683843 ID=MS.gene058175
chr2.1 mRNA 57683843 57684811 57683843 ID=MS.gene058175.t1;Parent=MS.gene058175
chr2.1 exon 57684631 57684811 57684631 ID=MS.gene058175.t1.exon1;Parent=MS.gene058175.t1
chr2.1 CDS 57684631 57684811 57684631 ID=cds.MS.gene058175.t1;Parent=MS.gene058175.t1
chr2.1 exon 57683843 57684135 57683843 ID=MS.gene058175.t1.exon2;Parent=MS.gene058175.t1
chr2.1 CDS 57683843 57684135 57683843 ID=cds.MS.gene058175.t1;Parent=MS.gene058175.t1
Gene Sequence

>MS.gene058175

ATGGGTGTACAAACTCAGGAGTATGCTACCCCTGCTGCTGTTCCTCCTGTTAGGCTCTTCAAAGCCATGTCATTAGAGTTTCATAACCTCTTCCCAAAGCTTGTGGAAGTGATCCAAAGTATTGAGTTCACTGAAGGAACTGGTGGTGCTGGAACAATCAAGAAGCTCACCACAGTTGAAGGTCAGTAATTAAATGCTATATTTTAATTCCATGACTTTAGGATTTGAGTCTTTGTTAGAGTGACAAGTGAGGACTTGTATTGTAGAAAAATGATCCTCAATTAAAATAAGAGAAAATTATAATTAATTAAAATGACACTAATGATCATTTTACAGTTGTCTCAGAGGATTTTAACTCTGTCTCTTTAGACCATAATTTGCACCTACTTATATCGTTGTAAACTTGAGCTTTTTGAATCGATTATGAGACTAATTCACATATCCAAAAATCATCACAAGTAAGACGAAGAAAAATGTTATGATTGTTTTTAATGAGAAACCATGATCATTATTTTTTTTTTTTTTTTATAGAAAAATGTTAGTGGTTAATTCGTTAAATTAAAGGAATATGGTCATAGTTATTTCATTTGAAAATCATTTATATAACATAATTTATAATCATAGTTAGTTAAATTAAATTAATGGAATATGAAATGAGTGAATTTGATGAATACAGGTGGAGAGACCAAGTATGTGCTACACAGAGTGGATGAAATTGATGAGACTAAATTTGTGTACAACTTTAGCATTATTGGGGGCACTGGATTGGCTGACACATTGGAGAAAGTCTCATTCAAGAGCCAATTGGTTGAAGGACCAAATGGAGGGTCCATTAGGAATGTACATGTTGATTATTTTACCAAAGGTGATTATAATTTAAGTGAGGAGGAGTTGAAAGCTGGTAAAGCAAAGGTTGAAGGACTTGTAAAGCTTGTTGAAGGGTACCTTTTGGCAAATCCTGATTACTGA

Protein sequence

>MS.gene058175.t1

MGVQTQEYATPAAVPPVRLFKAMSLEFHNLFPKLVEVIQSIEFTEGTGGAGTIKKLTTVEGGETKYVLHRVDEIDETKFVYNFSIIGGTGLADTLEKVSFKSQLVEGPNGGSIRNVHVDYFTKGDYNLSEEELKAGKAKVEGLVKLVEGYLLANPDY