AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059045


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059045.t1 MTR_2g035170 98.726 157 2 0 1 157 1 157 5.11e-112 315
MS.gene059045.t1 MTR_2g035100 60.510 157 62 0 1 157 1 157 1.99e-63 192
MS.gene059045.t1 MTR_2g035105 59.236 157 64 0 1 157 1 157 4.17e-62 188
MS.gene059045.t1 MTR_2g035150 58.599 157 65 0 1 157 1 157 5.02e-62 188
MS.gene059045.t1 MTR_2g035120 57.962 157 66 0 1 157 1 157 9.08e-60 182
MS.gene059045.t1 MTR_2g035130 56.688 157 68 0 1 157 1 157 2.22e-58 179
MS.gene059045.t1 MTR_6g033450 54.140 157 72 0 1 157 1 157 1.83e-54 169
MS.gene059045.t1 MTR_4g120970 54.140 157 72 0 1 157 1 157 1.83e-54 169
MS.gene059045.t1 MTR_2g035320 48.408 157 81 0 1 157 1 157 5.07e-50 158
MS.gene059045.t1 MTR_2g035190 47.771 157 82 0 1 157 1 157 1.94e-48 154
MS.gene059045.t1 MTR_2g035210 47.771 157 82 0 1 157 1 157 5.79e-48 152
MS.gene059045.t1 MTR_2g035220 49.315 146 74 0 12 157 12 157 1.92e-47 151
MS.gene059045.t1 MTR_2g035320 50.000 100 50 0 58 157 23 122 9.23e-31 107
MS.gene059045.t1 MTR_2g435310 35.526 152 95 2 5 155 7 156 7.10e-30 107
MS.gene059045.t1 MTR_4g120760 32.051 156 105 1 1 155 1 156 4.15e-28 102
MS.gene059045.t1 MTR_4g120760 32.051 156 105 1 1 155 1 156 4.58e-28 102
MS.gene059045.t1 MTR_4g120950 39.130 161 91 5 1 157 1 158 6.92e-25 94.4
MS.gene059045.t1 MTR_4g120940 56.164 73 32 0 85 157 47 119 1.46e-20 81.6
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
TGGATCACTTCCACAATCTT+TGG 0.208290 2.4:+56011710 None:intergenic
GTGTACAACTTTAGCATTAT+TGG 0.213546 2.4:-56011070 MS.gene059045:CDS
TGTACAACTTTAGCATTATT+GGG 0.243931 2.4:-56011069 MS.gene059045:CDS
ATTAAACACATTCAGTAATC+AGG 0.345127 2.4:+56010845 None:intergenic
CATTTGGTCCTTCAACCAAT+TGG 0.345692 2.4:+56011002 None:intergenic
GGATCACTTCCACAATCTTT+GGG 0.351546 2.4:+56011711 None:intergenic
ATGGCTTTGAAGAGCCTAAC+AGG 0.389381 2.4:+56011758 None:intergenic
CTGCTGCTGTTCCTCCTGTT+AGG 0.389483 2.4:-56011772 MS.gene059045:CDS
CTTCAGTGAACTCAATACTT+TGG 0.401346 2.4:+56011690 None:intergenic
ATCAACATGTACATTCCTAA+TGG 0.402440 2.4:+56010973 None:intergenic
ACTTAAATTATAATCACCTT+TGG 0.409104 2.4:+56010943 None:intergenic
TTCCTAATGGACCCTCCATT+TGG 0.409557 2.4:+56010986 None:intergenic
GCTTGTTGAAGGGTACCTTT+TGG 0.410083 2.4:-56010873 MS.gene059045:CDS
CACTCTGTGTAGCACATACT+TGG 0.421047 2.4:+56011117 None:intergenic
AGTGAGGAGGAGTTGAAAGC+TGG 0.432811 2.4:-56010923 MS.gene059045:CDS
GGACTTGTAAAGCTTGTTGA+AGG 0.441945 2.4:-56010884 MS.gene059045:CDS
GACCAAATGGAGGGTCCATT+AGG 0.448487 2.4:-56010988 MS.gene059045:CDS
GCTGGTAAAGCAAAGGTTGA+AGG 0.449190 2.4:-56010905 MS.gene059045:CDS
AAGAAGCTCACCACAGTTGA+AGG 0.458485 2.4:-56011644 MS.gene059045:intron
ACTGAAGGAACTGGTGGTGC+TGG 0.463110 2.4:-56011674 MS.gene059045:CDS
AGTAATCAGGATTTGCCAAA+AGG 0.469472 2.4:+56010858 None:intergenic
CTAACAGGAGGAACAGCAGC+AGG 0.474433 2.4:+56011773 None:intergenic
CTTCCACAATCTTTGGGAAG+AGG 0.478162 2.4:+56011717 None:intergenic
AGTCTCATTCAAGAGCCAAT+TGG 0.492931 2.4:-56011017 MS.gene059045:CDS
TTCAAGAGCCAATTGGTTGA+AGG 0.493896 2.4:-56011010 MS.gene059045:CDS
ATTGAGTTCACTGAAGGAAC+TGG 0.500969 2.4:-56011683 MS.gene059045:CDS
CACTGGATTGGCTGACACAT+TGG 0.522999 2.4:-56011044 MS.gene059045:CDS
TAACCTCTTCCCAAAGATTG+TGG 0.526332 2.4:-56011720 MS.gene059045:CDS
TGATTATAATTTAAGTGAGG+AGG 0.547716 2.4:-56010936 MS.gene059045:CDS
CAATTGGTTGAAGGACCAAA+TGG 0.561796 2.4:-56011001 MS.gene059045:CDS
AACAGGAGGAACAGCAGCAG+GGG 0.564864 2.4:+56011775 None:intergenic
GTACAACTTTAGCATTATTG+GGG 0.564914 2.4:-56011068 MS.gene059045:CDS
CATCATGGGTGTACAAACTC+AGG 0.570571 2.4:-56011807 None:intergenic
CAAAGTATTGAGTTCACTGA+AGG 0.574960 2.4:-56011689 MS.gene059045:CDS
TAATTACTGACCTTCAACTG+TGG 0.582513 2.4:+56011634 None:intergenic
TAACAGGAGGAACAGCAGCA+GGG 0.612336 2.4:+56011774 None:intergenic
TTGGTTGAAGGACCAAATGG+AGG 0.621672 2.4:-56010998 MS.gene059045:CDS
GACTTGTAAAGCTTGTTGAA+GGG 0.631158 2.4:-56010883 MS.gene059045:CDS
TGGTTGAAGGACCAAATGGA+GGG 0.640692 2.4:-56010997 MS.gene059045:CDS
GTTGAAAGCTGGTAAAGCAA+AGG 0.651458 2.4:-56010912 MS.gene059045:CDS
CAAGTATGTGCTACACAGAG+TGG 0.654201 2.4:-56011116 MS.gene059045:CDS
AGGTGATTATAATTTAAGTG+AGG 0.654716 2.4:-56010939 MS.gene059045:CDS
TACAACTTTAGCATTATTGG+GGG 0.677045 2.4:-56011067 MS.gene059045:CDS
GTTATGAAACTCTAATGACA+TGG 0.696174 2.4:+56011739 None:intergenic
GAGTTCACTGAAGGAACTGG+TGG 0.720921 2.4:-56011680 MS.gene059045:CDS
GCTTTGAAGAGCCTAACAGG+AGG 0.746272 2.4:+56011761 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGTTAGTTAAATTAAATTAA+TGG - chr2.4:56011479-56011498 MS.gene059045:intron 10.0%
!! ATAAAAAAAAATAATGATCA+TGG + chr2.4:56011366-56011385 None:intergenic 10.0%
!! TGATTAATTCGTTAAATTAA+AGG - chr2.4:56011399-56011418 MS.gene059045:intron 15.0%
!!! ATTTTCTCTTATTTTAATTG+AGG + chr2.4:56011134-56011153 None:intergenic 15.0%
!! ACTTAAATTATAATCACCTT+TGG + chr2.4:56011719-56011738 None:intergenic 20.0%
!! TTCGTTAAATTAAAGGAATA+TGG - chr2.4:56011406-56011425 MS.gene059045:intron 20.0%
!!! TATTTTAATTCCATGACTTT+AGG - chr2.4:56011055-56011074 MS.gene059045:CDS 20.0%
! AGGTGATTATAATTTAAGTG+AGG - chr2.4:56011720-56011739 MS.gene059045:CDS 25.0%
! ATATAAGTAGGTGCAAATTA+TGG + chr2.4:56011229-56011248 None:intergenic 25.0%
! TGATTATAATTTAAGTGAGG+AGG - chr2.4:56011723-56011742 MS.gene059045:CDS 25.0%
! TGTACAACTTTAGCATTATT+GGG - chr2.4:56011590-56011609 MS.gene059045:intron 25.0%
!!! CATGTTGATTATTTTACCAA+AGG - chr2.4:56011700-56011719 MS.gene059045:CDS 25.0%
AAGAATACCACGATATAAGT+AGG + chr2.4:56011241-56011260 None:intergenic 30.0%
ATCAACATGTACATTCCTAA+TGG + chr2.4:56011689-56011708 None:intergenic 30.0%
GTACAACTTTAGCATTATTG+GGG - chr2.4:56011591-56011610 MS.gene059045:intron 30.0%
GTGTACAACTTTAGCATTAT+TGG - chr2.4:56011589-56011608 MS.gene059045:intron 30.0%
GTTATGAAACTCTAATGACA+TGG + chr2.4:56010923-56010942 None:intergenic 30.0%
TACAACTTTAGCATTATTGG+GGG - chr2.4:56011592-56011611 MS.gene059045:intron 30.0%
TGAGTGAATTTGATGAATAC+AGG - chr2.4:56011511-56011530 MS.gene059045:intron 30.0%
! GACTTACTTGTGATGATTTT+TGG + chr2.4:56011309-56011328 None:intergenic 30.0%
AGACTCAAATCCTAAAGTCA+TGG + chr2.4:56011068-56011087 None:intergenic 35.0%
AGTAATCAGGATTTGCCAAA+AGG + chr2.4:56011804-56011823 None:intergenic 35.0%
ATTTGCACCTACTTATATCG+TGG - chr2.4:56011231-56011250 MS.gene059045:intron 35.0%
CTTCAGTGAACTCAATACTT+TGG + chr2.4:56010972-56010991 None:intergenic 35.0%
GTGAATTTGATGAATACAGG+TGG - chr2.4:56011514-56011533 MS.gene059045:intron 35.0%
TAATTACTGACCTTCAACTG+TGG + chr2.4:56011028-56011047 None:intergenic 35.0%
! TCATTTTACAGTTGTCTCAG+AGG - chr2.4:56011181-56011200 MS.gene059045:intron 35.0%
!! CAAAGTATTGAGTTCACTGA+AGG - chr2.4:56010970-56010989 MS.gene059045:CDS 35.0%
!! GACTTGTAAAGCTTGTTGAA+GGG - chr2.4:56011776-56011795 MS.gene059045:CDS 35.0%
AGTCTCATTCAAGAGCCAAT+TGG - chr2.4:56011642-56011661 MS.gene059045:intron 40.0%
ATTGAGTTCACTGAAGGAAC+TGG - chr2.4:56010976-56010995 MS.gene059045:CDS 40.0%
CAATTGGTTGAAGGACCAAA+TGG - chr2.4:56011658-56011677 MS.gene059045:CDS 40.0%
CATTTGGTCCTTCAACCAAT+TGG + chr2.4:56011660-56011679 None:intergenic 40.0%
CTTTGTTAGAGTGACAAGTG+AGG - chr2.4:56011086-56011105 MS.gene059045:CDS 40.0%
GGATCACTTCCACAATCTTT+GGG + chr2.4:56010951-56010970 None:intergenic 40.0%
GTTGAAAGCTGGTAAAGCAA+AGG - chr2.4:56011747-56011766 MS.gene059045:CDS 40.0%
TAACCTCTTCCCAAAGATTG+TGG - chr2.4:56010939-56010958 MS.gene059045:CDS 40.0%
TGGATCACTTCCACAATCTT+TGG + chr2.4:56010952-56010971 None:intergenic 40.0%
TTCAAGAGCCAATTGGTTGA+AGG - chr2.4:56011649-56011668 MS.gene059045:CDS 40.0%
!! GGACTTGTAAAGCTTGTTGA+AGG - chr2.4:56011775-56011794 MS.gene059045:CDS 40.0%
AAGAAGCTCACCACAGTTGA+AGG - chr2.4:56011015-56011034 MS.gene059045:CDS 45.0%
CAAGTATGTGCTACACAGAG+TGG - chr2.4:56011543-56011562 MS.gene059045:intron 45.0%
CACTCTGTGTAGCACATACT+TGG + chr2.4:56011545-56011564 None:intergenic 45.0%
GCTGGTAAAGCAAAGGTTGA+AGG - chr2.4:56011754-56011773 MS.gene059045:CDS 45.0%
TGGTTGAAGGACCAAATGGA+GGG - chr2.4:56011662-56011681 MS.gene059045:CDS 45.0%
TTGGTTGAAGGACCAAATGG+AGG - chr2.4:56011661-56011680 MS.gene059045:CDS 45.0%
! CTTCCACAATCTTTGGGAAG+AGG + chr2.4:56010945-56010964 None:intergenic 45.0%
! TTCCTAATGGACCCTCCATT+TGG + chr2.4:56011676-56011695 None:intergenic 45.0%
! TTTAGCATTATTGGGGGCAC+TGG - chr2.4:56011598-56011617 MS.gene059045:intron 45.0%
!! ATGGCTTTGAAGAGCCTAAC+AGG + chr2.4:56010904-56010923 None:intergenic 45.0%
!!! GCTTGTTGAAGGGTACCTTT+TGG - chr2.4:56011786-56011805 MS.gene059045:CDS 45.0%
AGTGAGGAGGAGTTGAAAGC+TGG - chr2.4:56011736-56011755 MS.gene059045:CDS 50.0%
GACCAAATGGAGGGTCCATT+AGG - chr2.4:56011671-56011690 MS.gene059045:CDS 50.0%
GAGTTCACTGAAGGAACTGG+TGG - chr2.4:56010979-56010998 MS.gene059045:CDS 50.0%
TAACAGGAGGAACAGCAGCA+GGG + chr2.4:56010888-56010907 None:intergenic 50.0%
!! CACTGGATTGGCTGACACAT+TGG - chr2.4:56011615-56011634 MS.gene059045:intron 50.0%
!! CATTATTGGGGGCACTGGAT+TGG - chr2.4:56011603-56011622 MS.gene059045:intron 50.0%
!! GCTTTGAAGAGCCTAACAGG+AGG + chr2.4:56010901-56010920 None:intergenic 50.0%
AACAGGAGGAACAGCAGCAG+GGG + chr2.4:56010887-56010906 None:intergenic 55.0%
CTAACAGGAGGAACAGCAGC+AGG + chr2.4:56010889-56010908 None:intergenic 55.0%
CTGCTGCTGTTCCTCCTGTT+AGG - chr2.4:56010887-56010906 MS.gene059045:CDS 55.0%
! ACTGAAGGAACTGGTGGTGC+TGG - chr2.4:56010985-56011004 MS.gene059045:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 56010856 56011825 56010856 ID=MS.gene059045
chr2.4 mRNA 56010856 56011825 56010856 ID=MS.gene059045.t1;Parent=MS.gene059045
chr2.4 exon 56011645 56011825 56011645 ID=MS.gene059045.t1.exon1;Parent=MS.gene059045.t1
chr2.4 CDS 56011645 56011825 56011645 ID=cds.MS.gene059045.t1;Parent=MS.gene059045.t1
chr2.4 exon 56010856 56011148 56010856 ID=MS.gene059045.t1.exon2;Parent=MS.gene059045.t1
chr2.4 CDS 56010856 56011148 56010856 ID=cds.MS.gene059045.t1;Parent=MS.gene059045.t1
Gene Sequence

>MS.gene059045

ATGGGTGTACAAACTCAGGAGTATGCTACCCCTGCTGCTGTTCCTCCTGTTAGGCTCTTCAAAGCCATGTCATTAGAGTTTCATAACCTCTTCCCAAAGATTGTGGAAGTGATCCAAAGTATTGAGTTCACTGAAGGAACTGGTGGTGCTGGAACAATCAAGAAGCTCACCACAGTTGAAGGTCAGTAATTAAATGCTATATTTTAATTCCATGACTTTAGGATTTGAGTCTTTGTTAGAGTGACAAGTGAGGACTTGTATTGTAGAAAAATGATCCTCAATTAAAATAAGAGAAAATTATAATTAATTAAAATGACACTAATGATCATTTTACAGTTGTCTCAGAGGATTGTAACTCTGTCTCTTTAGACCATAATTTGCACCTACTTATATCGTGGTATTCTTGTAAACTTGAGCTTTTTGAATCAATTATGAGACTAATTCACATATCCAAAAATCATCACAAGTAAGTCGAAGAAAAATGTTATGATTGTTTTTAATGAGAAACCATGATCATTATTTTTTTTTATAGACAAATGTTAGTGATTAATTCGTTAAATTAAAGGAATATGGTCATAGTTATTTCATTTGAAAATCATTTATATAACATAATTTATAATCATAGTTAGTTAAATTAAATTAATGGAATATGAAATGAGTGAATTTGATGAATACAGGTGGAGAGACCAAGTATGTGCTACACAGAGTGGATGAAATTGATGAGACTAAATTTGTGTACAACTTTAGCATTATTGGGGGCACTGGATTGGCTGACACATTGGAGAAAGTCTCATTCAAGAGCCAATTGGTTGAAGGACCAAATGGAGGGTCCATTAGGAATGTACATGTTGATTATTTTACCAAAGGTGATTATAATTTAAGTGAGGAGGAGTTGAAAGCTGGTAAAGCAAAGGTTGAAGGACTTGTAAAGCTTGTTGAAGGGTACCTTTTGGCAAATCCTGATTACTGA

Protein sequence

>MS.gene059045.t1

MGVQTQEYATPAAVPPVRLFKAMSLEFHNLFPKIVEVIQSIEFTEGTGGAGTIKKLTTVEGGETKYVLHRVDEIDETKFVYNFSIIGGTGLADTLEKVSFKSQLVEGPNGGSIRNVHVDYFTKGDYNLSEEELKAGKAKVEGLVKLVEGYLLANPDY