AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene058173


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058173.t1 MTR_2g035170 99.338 151 1 0 1 151 7 157 2.52e-107 302
MS.gene058173.t1 MTR_2g035100 60.927 151 59 0 1 151 7 157 1.13e-61 187
MS.gene058173.t1 MTR_2g035105 59.603 151 61 0 1 151 7 157 2.05e-60 184
MS.gene058173.t1 MTR_2g035150 58.940 151 62 0 1 151 7 157 2.44e-60 184
MS.gene058173.t1 MTR_2g035120 58.278 151 63 0 1 151 7 157 5.99e-58 177
MS.gene058173.t1 MTR_2g035130 56.954 151 65 0 1 151 7 157 1.37e-56 174
MS.gene058173.t1 MTR_6g033450 53.642 151 70 0 1 151 7 157 1.25e-52 164
MS.gene058173.t1 MTR_4g120970 53.642 151 70 0 1 151 7 157 1.25e-52 164
MS.gene058173.t1 MTR_2g035320 49.315 146 74 0 6 151 12 157 4.62e-49 155
MS.gene058173.t1 MTR_2g035190 48.630 146 75 0 6 151 12 157 1.68e-47 151
MS.gene058173.t1 MTR_2g035220 49.315 146 74 0 6 151 12 157 3.00e-47 150
MS.gene058173.t1 MTR_2g035210 48.630 146 75 0 6 151 12 157 3.10e-47 150
MS.gene058173.t1 MTR_2g035320 50.000 100 50 0 52 151 23 122 9.56e-31 107
MS.gene058173.t1 MTR_2g435310 36.000 150 93 2 1 149 9 156 1.81e-29 105
MS.gene058173.t1 MTR_4g120760 32.414 145 97 1 6 149 12 156 1.14e-26 98.6
MS.gene058173.t1 MTR_4g120760 32.414 145 97 1 6 149 12 156 1.14e-26 98.6
MS.gene058173.t1 MTR_4g120950 40.972 144 78 5 12 151 18 158 3.13e-23 89.7
MS.gene058173.t1 MTR_4g120940 56.164 73 32 0 79 151 47 119 1.19e-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 45 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 2.2:+53699332 MS.gene058173:CDS
TGTACAACTTTAGCATTATT+GGG 0.243931 2.2:+53699333 MS.gene058173:CDS
TGGATCACTTCCACAAGCTT+TGG 0.317240 2.2:-53698693 None:intergenic
ATTAAACACATTCAGTAATC+AGG 0.345127 2.2:-53699557 None:intergenic
CATTTGGTCCTTCAACCAAT+TGG 0.345692 2.2:-53699400 None:intergenic
GGATCACTTCCACAAGCTTT+GGG 0.357297 2.2:-53698692 None:intergenic
ATGGCTTTGAAGAGCCTAAC+AGG 0.389381 2.2:-53698645 None:intergenic
CTGCTGCTGTTCCTCCTGTT+AGG 0.389483 2.2:+53698631 MS.gene058173:CDS
CTTCAGTGAACTCAATACTT+TGG 0.401346 2.2:-53698713 None:intergenic
ATCAACATGTACATTCCTAA+TGG 0.402440 2.2:-53699429 None:intergenic
ACTTAAATTATAATCACCTT+TGG 0.409104 2.2:-53699459 None:intergenic
TTCCTAATGGACCCTCCATT+TGG 0.409557 2.2:-53699416 None:intergenic
GCTTGTTGAAGGGTACCTTT+TGG 0.410083 2.2:+53699529 MS.gene058173:CDS
CACTCTGTGTAGCACATACT+TGG 0.421047 2.2:-53699285 None:intergenic
CTTCCACAAGCTTTGGGAAG+AGG 0.431558 2.2:-53698686 None:intergenic
AGTGAGGAGGAGTTGAAAGC+TGG 0.432811 2.2:+53699479 MS.gene058173:CDS
GGACTTGTAAAGCTTGTTGA+AGG 0.441945 2.2:+53699518 MS.gene058173:CDS
GACCAAATGGAGGGTCCATT+AGG 0.448487 2.2:+53699414 MS.gene058173:CDS
GCTGGTAAAGCAAAGGTTGA+AGG 0.449190 2.2:+53699497 MS.gene058173:CDS
AAGAAGCTCACCACAGTTGA+AGG 0.458485 2.2:+53698759 MS.gene058173:CDS
ACTGAAGGAACTGGTGGTGC+TGG 0.463110 2.2:+53698729 MS.gene058173:CDS
AGTAATCAGGATTTGCCAAA+AGG 0.469472 2.2:-53699544 None:intergenic
CTAACAGGAGGAACAGCAGC+AGG 0.474433 2.2:-53698630 None:intergenic
AGTCTCATTCAAGAGCCAAT+TGG 0.492931 2.2:+53699385 MS.gene058173:CDS
TTCAAGAGCCAATTGGTTGA+AGG 0.493896 2.2:+53699392 MS.gene058173:CDS
ATTGAGTTCACTGAAGGAAC+TGG 0.500969 2.2:+53698720 MS.gene058173:CDS
TAACCTCTTCCCAAAGCTTG+TGG 0.518650 2.2:+53698683 MS.gene058173:CDS
CACTGGATTGGCTGACACAT+TGG 0.522999 2.2:+53699358 MS.gene058173:CDS
TGATTATAATTTAAGTGAGG+AGG 0.547716 2.2:+53699466 MS.gene058173:CDS
CAATTGGTTGAAGGACCAAA+TGG 0.561796 2.2:+53699401 MS.gene058173:CDS
AACAGGAGGAACAGCAGCAG+GGG 0.564864 2.2:-53698628 None:intergenic
GTACAACTTTAGCATTATTG+GGG 0.564914 2.2:+53699334 MS.gene058173:CDS
CAAAGTATTGAGTTCACTGA+AGG 0.574960 2.2:+53698714 MS.gene058173:CDS
TAATTACTGACCTTCAACTG+TGG 0.582513 2.2:-53698769 None:intergenic
TAACAGGAGGAACAGCAGCA+GGG 0.612336 2.2:-53698629 None:intergenic
TTGGTTGAAGGACCAAATGG+AGG 0.621672 2.2:+53699404 MS.gene058173:CDS
GACTTGTAAAGCTTGTTGAA+GGG 0.631158 2.2:+53699519 MS.gene058173:CDS
TGGTTGAAGGACCAAATGGA+GGG 0.640692 2.2:+53699405 MS.gene058173:CDS
GTTGAAAGCTGGTAAAGCAA+AGG 0.651458 2.2:+53699490 MS.gene058173:CDS
CAAGTATGTGCTACACAGAG+TGG 0.654201 2.2:+53699286 MS.gene058173:CDS
AGGTGATTATAATTTAAGTG+AGG 0.654716 2.2:+53699463 MS.gene058173:CDS
TACAACTTTAGCATTATTGG+GGG 0.677045 2.2:+53699335 MS.gene058173:CDS
GTTATGAAACTCTAATGACA+TGG 0.696174 2.2:-53698664 None:intergenic
GAGTTCACTGAAGGAACTGG+TGG 0.720921 2.2:+53698723 MS.gene058173:CDS
GCTTTGAAGAGCCTAACAGG+AGG 0.746272 2.2:-53698642 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAAAAAATAATGATCA+TGG - chr2.2:53699102-53699121 None:intergenic 10.0%
!! AGTTAGTTAAATTAAATTAA+TGG + chr2.2:53699222-53699241 MS.gene058173:intron 10.0%
!!! ATTTTCTCTTATTTTAATTG+AGG - chr2.2:53698878-53698897 None:intergenic 15.0%
!!! TTTTTATAGAAAAATGTTAG+TGG + chr2.2:53699122-53699141 MS.gene058173:intron 15.0%
!! ACTTAAATTATAATCACCTT+TGG - chr2.2:53699462-53699481 None:intergenic 20.0%
!! TGGTTAATTCGTTAAATTAA+AGG + chr2.2:53699142-53699161 MS.gene058173:intron 20.0%
!! TTCGTTAAATTAAAGGAATA+TGG + chr2.2:53699149-53699168 MS.gene058173:intron 20.0%
!!! TATTTTAATTCCATGACTTT+AGG + chr2.2:53698799-53698818 MS.gene058173:intron 20.0%
! AAGTTTACAACGATATAAGT+AGG - chr2.2:53698985-53699004 None:intergenic 25.0%
! AGGTGATTATAATTTAAGTG+AGG + chr2.2:53699463-53699482 MS.gene058173:CDS 25.0%
! ATATAAGTAGGTGCAAATTA+TGG - chr2.2:53698973-53698992 None:intergenic 25.0%
! TGATTATAATTTAAGTGAGG+AGG + chr2.2:53699466-53699485 MS.gene058173:CDS 25.0%
! TGTACAACTTTAGCATTATT+GGG + chr2.2:53699333-53699352 MS.gene058173:CDS 25.0%
!!! CATGTTGATTATTTTACCAA+AGG + chr2.2:53699443-53699462 MS.gene058173:CDS 25.0%
ATCAACATGTACATTCCTAA+TGG - chr2.2:53699432-53699451 None:intergenic 30.0%
GTACAACTTTAGCATTATTG+GGG + chr2.2:53699334-53699353 MS.gene058173:CDS 30.0%
GTGTACAACTTTAGCATTAT+TGG + chr2.2:53699332-53699351 MS.gene058173:CDS 30.0%
GTTATGAAACTCTAATGACA+TGG - chr2.2:53698667-53698686 None:intergenic 30.0%
TACAACTTTAGCATTATTGG+GGG + chr2.2:53699335-53699354 MS.gene058173:CDS 30.0%
TGAGTGAATTTGATGAATAC+AGG + chr2.2:53699254-53699273 MS.gene058173:intron 30.0%
! GTCTTACTTGTGATGATTTT+TGG - chr2.2:53699045-53699064 None:intergenic 30.0%
AGACTCAAATCCTAAAGTCA+TGG - chr2.2:53698812-53698831 None:intergenic 35.0%
AGTAATCAGGATTTGCCAAA+AGG - chr2.2:53699547-53699566 None:intergenic 35.0%
CTTCAGTGAACTCAATACTT+TGG - chr2.2:53698716-53698735 None:intergenic 35.0%
GTGAATTTGATGAATACAGG+TGG + chr2.2:53699257-53699276 MS.gene058173:intron 35.0%
TAATTACTGACCTTCAACTG+TGG - chr2.2:53698772-53698791 None:intergenic 35.0%
! TCATTTTACAGTTGTCTCAG+AGG + chr2.2:53698925-53698944 MS.gene058173:intron 35.0%
!! CAAAGTATTGAGTTCACTGA+AGG + chr2.2:53698714-53698733 MS.gene058173:CDS 35.0%
!! GACTTGTAAAGCTTGTTGAA+GGG + chr2.2:53699519-53699538 MS.gene058173:CDS 35.0%
AGTCTCATTCAAGAGCCAAT+TGG + chr2.2:53699385-53699404 MS.gene058173:CDS 40.0%
ATTGAGTTCACTGAAGGAAC+TGG + chr2.2:53698720-53698739 MS.gene058173:CDS 40.0%
CAATTGGTTGAAGGACCAAA+TGG + chr2.2:53699401-53699420 MS.gene058173:CDS 40.0%
CATTTGGTCCTTCAACCAAT+TGG - chr2.2:53699403-53699422 None:intergenic 40.0%
CTTTGTTAGAGTGACAAGTG+AGG + chr2.2:53698830-53698849 MS.gene058173:intron 40.0%
GTTGAAAGCTGGTAAAGCAA+AGG + chr2.2:53699490-53699509 MS.gene058173:CDS 40.0%
TTCAAGAGCCAATTGGTTGA+AGG + chr2.2:53699392-53699411 MS.gene058173:CDS 40.0%
!! GGACTTGTAAAGCTTGTTGA+AGG + chr2.2:53699518-53699537 MS.gene058173:CDS 40.0%
AAGAAGCTCACCACAGTTGA+AGG + chr2.2:53698759-53698778 MS.gene058173:CDS 45.0%
CAAGTATGTGCTACACAGAG+TGG + chr2.2:53699286-53699305 MS.gene058173:CDS 45.0%
CACTCTGTGTAGCACATACT+TGG - chr2.2:53699288-53699307 None:intergenic 45.0%
GCTGGTAAAGCAAAGGTTGA+AGG + chr2.2:53699497-53699516 MS.gene058173:CDS 45.0%
GGATCACTTCCACAAGCTTT+GGG - chr2.2:53698695-53698714 None:intergenic 45.0%
TAACCTCTTCCCAAAGCTTG+TGG + chr2.2:53698683-53698702 MS.gene058173:CDS 45.0%
TGGATCACTTCCACAAGCTT+TGG - chr2.2:53698696-53698715 None:intergenic 45.0%
TGGTTGAAGGACCAAATGGA+GGG + chr2.2:53699405-53699424 MS.gene058173:CDS 45.0%
TTGGTTGAAGGACCAAATGG+AGG + chr2.2:53699404-53699423 MS.gene058173:CDS 45.0%
! TTCCTAATGGACCCTCCATT+TGG - chr2.2:53699419-53699438 None:intergenic 45.0%
! TTTAGCATTATTGGGGGCAC+TGG + chr2.2:53699341-53699360 MS.gene058173:CDS 45.0%
!! ATGGCTTTGAAGAGCCTAAC+AGG - chr2.2:53698648-53698667 None:intergenic 45.0%
!!! GCTTGTTGAAGGGTACCTTT+TGG + chr2.2:53699529-53699548 MS.gene058173:CDS 45.0%
AGTGAGGAGGAGTTGAAAGC+TGG + chr2.2:53699479-53699498 MS.gene058173:CDS 50.0%
GACCAAATGGAGGGTCCATT+AGG + chr2.2:53699414-53699433 MS.gene058173:CDS 50.0%
GAGTTCACTGAAGGAACTGG+TGG + chr2.2:53698723-53698742 MS.gene058173:CDS 50.0%
TAACAGGAGGAACAGCAGCA+GGG - chr2.2:53698632-53698651 None:intergenic 50.0%
!! CACTGGATTGGCTGACACAT+TGG + chr2.2:53699358-53699377 MS.gene058173:CDS 50.0%
!! CATTATTGGGGGCACTGGAT+TGG + chr2.2:53699346-53699365 MS.gene058173:CDS 50.0%
!! CTTCCACAAGCTTTGGGAAG+AGG - chr2.2:53698689-53698708 None:intergenic 50.0%
!! GCTTTGAAGAGCCTAACAGG+AGG - chr2.2:53698645-53698664 None:intergenic 50.0%
AACAGGAGGAACAGCAGCAG+GGG - chr2.2:53698631-53698650 None:intergenic 55.0%
CTAACAGGAGGAACAGCAGC+AGG - chr2.2:53698633-53698652 None:intergenic 55.0%
CTGCTGCTGTTCCTCCTGTT+AGG + chr2.2:53698631-53698650 MS.gene058173:CDS 55.0%
! ACTGAAGGAACTGGTGGTGC+TGG + chr2.2:53698729-53698748 MS.gene058173:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 53698618 53699568 53698618 ID=MS.gene058173
chr2.2 mRNA 53698618 53699568 53698618 ID=MS.gene058173.t1;Parent=MS.gene058173
chr2.2 exon 53698618 53698780 53698618 ID=MS.gene058173.t1.exon1;Parent=MS.gene058173.t1
chr2.2 CDS 53698618 53698780 53698618 ID=cds.MS.gene058173.t1;Parent=MS.gene058173.t1
chr2.2 exon 53699276 53699568 53699276 ID=MS.gene058173.t1.exon2;Parent=MS.gene058173.t1
chr2.2 CDS 53699276 53699568 53699276 ID=cds.MS.gene058173.t1;Parent=MS.gene058173.t1
Gene Sequence

>MS.gene058173

GAGTATGCTACCCCTGCTGCTGTTCCTCCTGTTAGGCTCTTCAAAGCCATGTCATTAGAGTTTCATAACCTCTTCCCAAAGCTTGTGGAAGTGATCCAAAGTATTGAGTTCACTGAAGGAACTGGTGGTGCTGGAACAATCAAGAAGCTCACCACAGTTGAAGGTCAGTAATTAAATGCTATATTTTAATTCCATGACTTTAGGATTTGAGTCTTTGTTAGAGTGACAAGTGAGGACTTGTATTGTAGAAAAATGATCCTCAATTAAAATAAGAGAAAATTATAATTAATTAAAATGACACTAATGATCATTTTACAGTTGTCTCAGAGGATTTTAACTCTGTCTCTTTAGACCATAATTTGCACCTACTTATATCGTTGTAAACTTGAGCTTTTTGAATCGATTATGAGACTAATTCACATATCCAAAAATCATCACAAGTAAGACGAAGAAAAATGTTATGATTGTTTTTAATGAGAAACCATGATCATTATTTTTTTTTTTTTTTTATAGAAAAATGTTAGTGGTTAATTCGTTAAATTAAAGGAATATGGTCATAGTTATTTCATTTGAAAATCATTTATATAACATAATTTATAATCATAGTTAGTTAAATTAAATTAATGGAATATGAAATGAGTGAATTTGATGAATACAGGTGGAGAGACCAAGTATGTGCTACACAGAGTGGATGAAATTGATGAGACTAAATTTGTGTACAACTTTAGCATTATTGGGGGCACTGGATTGGCTGACACATTGGAGAAAGTCTCATTCAAGAGCCAATTGGTTGAAGGACCAAATGGAGGGTCCATTAGGAATGTACATGTTGATTATTTTACCAAAGGTGATTATAATTTAAGTGAGGAGGAGTTGAAAGCTGGTAAAGCAAAGGTTGAAGGACTTGTAAAGCTTGTTGAAGGGTACCTTTTGGCAAATCCTGATTACTGA

Protein sequence

>MS.gene058173.t1

EYATPAAVPPVRLFKAMSLEFHNLFPKLVEVIQSIEFTEGTGGAGTIKKLTTVEGGETKYVLHRVDEIDETKFVYNFSIIGGTGLADTLEKVSFKSQLVEGPNGGSIRNVHVDYFTKGDYNLSEEELKAGKAKVEGLVKLVEGYLLANPDY