AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene054379


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene054379.t1 MTR_7g111900 97.110 173 1 3 1 172 1 170 4.98e-115 323
MS.gene054379.t1 MTR_7g103200 85.235 149 22 0 1 149 1 149 6.50e-92 264
MS.gene054379.t1 MTR_1g084200 71.233 146 42 0 1 146 1 146 5.98e-73 217
MS.gene054379.t1 MTR_2g019480 45.578 147 80 0 10 156 14 160 8.92e-49 155
MS.gene054379.t1 MTR_2g046150 46.053 152 81 1 2 153 6 156 4.06e-40 133
MS.gene054379.t1 MTR_4g122930 47.059 153 77 2 1 151 1 151 2.71e-39 131
MS.gene054379.t1 MTR_2g091210 45.528 123 67 0 17 139 12 134 1.04e-33 116
MS.gene054379.t1 MTR_2g091215 53.636 110 51 0 28 137 23 132 1.41e-32 113
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene054379.t1 AT1G09310 62.791 172 62 2 1 171 1 171 4.65e-68 205
MS.gene054379.t1 AT1G56580 69.014 142 43 1 1 141 1 142 3.27e-67 202
MS.gene054379.t1 AT5G46230 47.692 130 68 0 12 141 14 143 4.00e-46 148
MS.gene054379.t1 AT4G24130 45.185 135 74 0 9 143 13 147 3.96e-39 130
MS.gene054379.t1 AT1G30020 43.609 133 75 0 13 145 15 147 4.06e-36 123
MS.gene054379.t1 AT5G49600 46.207 145 68 4 3 138 1 144 7.09e-35 120

Find 30 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATTTCTTTGAGAAGCTCTT+TGG 0.291146 7.4:-4655165 None:intergenic
TTCAATGGTAAAAGACCATT+TGG 0.295506 7.4:-4655194 None:intergenic
GTCACTGCTTACGTTGAAAA+TGG 0.305607 7.4:+4655332 MS.gene054379:CDS
ATCACATTCAAAACACCTTC+TGG 0.305889 7.4:+4655449 MS.gene054379:CDS
AACCCAAATCAAAAGCTCTT+TGG 0.308533 7.4:-4655384 None:intergenic
TCAATTTCAAAAGCAGAAAC+AGG 0.316797 7.4:-4655488 None:intergenic
TCCATGGTAAACCTCGGATT+TGG 0.319079 7.4:-4655120 None:intergenic
GTTGGTTACAACAGAGAAAC+AGG 0.372734 7.4:+4655230 MS.gene054379:CDS
ACACACAAATTCGAAAAGAT+TGG 0.384478 7.4:+4655284 MS.gene054379:CDS
ACTTCGGTAGCATAGGAAAC+AGG 0.457776 7.4:-4655311 None:intergenic
TATATTGATGATCCACCAAC+TGG 0.471274 7.4:+4655422 MS.gene054379:CDS
CACACAAATTCGAAAAGATT+GGG 0.476488 7.4:+4655285 MS.gene054379:CDS
TTGAAAGACATCACTGAAGT+TGG 0.485594 7.4:+4655212 MS.gene054379:CDS
AAAGAAATCTCTCTCCCAAA+TGG 0.487795 7.4:+4655179 MS.gene054379:CDS
ATCAAGTGGTGTTGCTGTCA+AGG 0.488382 7.4:+4655526 MS.gene054379:CDS
TCAATGGTAAAAGACCATTT+GGG 0.506164 7.4:-4655193 None:intergenic
CCATGGAGACGAAATGTGTC+AGG 0.515719 7.4:+4655136 MS.gene054379:CDS
GAAGAGAAAGAGAAATCAAG+TGG 0.519627 7.4:+4655512 MS.gene054379:CDS
TGCTGCTGGTGGTGTTAAAG+AGG 0.519723 7.4:+4655583 MS.gene054379:CDS
ACTTCAGTGATGTCTTTCAA+TGG 0.520310 7.4:-4655209 None:intergenic
CCTGACACATTTCGTCTCCA+TGG 0.557991 7.4:-4655136 None:intergenic
TGTCAAGGAAGTTGCTAACA+AGG 0.558837 7.4:+4655541 MS.gene054379:CDS
TTCGTCTCCATGGTAAACCT+CGG 0.581474 7.4:-4655126 None:intergenic
TTCAACGTAAGCAGTGACTT+CGG 0.602234 7.4:-4655327 None:intergenic
CAATTTCAAAAGCAGAAACA+GGG 0.604117 7.4:-4655487 None:intergenic
AGCAGTGACTTCGGTAGCAT+AGG 0.607903 7.4:-4655318 None:intergenic
TCCAAATCCGAGGTTTACCA+TGG 0.611352 7.4:+4655119 MS.gene054379:CDS
CAACCCCAAAACGATGTCGT+TGG 0.618459 7.4:+4655079 None:intergenic
GGTAAGATCAAGAAACTGAA+CGG 0.640251 7.4:+4655353 MS.gene054379:CDS
AGAAATCAAATCCAAATCCG+AGG 0.652928 7.4:+4655109 MS.gene054379:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACACACAAATTCGAAAAGAT+TGG + chr7.4:4655284-4655303 MS.gene054379:CDS 30.0%
CAATTTCAAAAGCAGAAACA+GGG - chr7.4:4655490-4655509 None:intergenic 30.0%
CACACAAATTCGAAAAGATT+GGG + chr7.4:4655285-4655304 MS.gene054379:CDS 30.0%
TCAATGGTAAAAGACCATTT+GGG - chr7.4:4655196-4655215 None:intergenic 30.0%
TCAATTTCAAAAGCAGAAAC+AGG - chr7.4:4655491-4655510 None:intergenic 30.0%
TTCAATGGTAAAAGACCATT+TGG - chr7.4:4655197-4655216 None:intergenic 30.0%
! AAACTTCTAAAAAGTCCAGA+AGG - chr7.4:4655467-4655486 None:intergenic 30.0%
! TTGAATGTGATTTTACCAGT+TGG - chr7.4:4655440-4655459 None:intergenic 30.0%
!! AAACCAAAGAGCTTTTGATT+TGG + chr7.4:4655381-4655400 MS.gene054379:CDS 30.0%
!!! AACCAAAGAGCTTTTGATTT+GGG + chr7.4:4655382-4655401 MS.gene054379:CDS 30.0%
AAAGAAATCTCTCTCCCAAA+TGG + chr7.4:4655179-4655198 MS.gene054379:CDS 35.0%
AACCCAAATCAAAAGCTCTT+TGG - chr7.4:4655387-4655406 None:intergenic 35.0%
ACTTCAGTGATGTCTTTCAA+TGG - chr7.4:4655212-4655231 None:intergenic 35.0%
AGAAATCAAATCCAAATCCG+AGG + chr7.4:4655109-4655128 MS.gene054379:CDS 35.0%
ATCACATTCAAAACACCTTC+TGG + chr7.4:4655449-4655468 MS.gene054379:CDS 35.0%
GAAGAGAAAGAGAAATCAAG+TGG + chr7.4:4655512-4655531 MS.gene054379:CDS 35.0%
GGTAAGATCAAGAAACTGAA+CGG + chr7.4:4655353-4655372 MS.gene054379:CDS 35.0%
TTGAAAGACATCACTGAAGT+TGG + chr7.4:4655212-4655231 MS.gene054379:CDS 35.0%
! AATGTGATTTTACCAGTTGG+TGG - chr7.4:4655437-4655456 None:intergenic 35.0%
! GATTTCTTTGAGAAGCTCTT+TGG - chr7.4:4655168-4655187 None:intergenic 35.0%
! TATATTGATGATCCACCAAC+TGG + chr7.4:4655422-4655441 MS.gene054379:CDS 35.0%
!!! ACAGAGAAACAGGTTTTGTT+TGG + chr7.4:4655240-4655259 MS.gene054379:CDS 35.0%
GTCACTGCTTACGTTGAAAA+TGG + chr7.4:4655332-4655351 MS.gene054379:CDS 40.0%
GTTGGTTACAACAGAGAAAC+AGG + chr7.4:4655230-4655249 MS.gene054379:CDS 40.0%
TGTCAAGGAAGTTGCTAACA+AGG + chr7.4:4655541-4655560 MS.gene054379:CDS 40.0%
TTCAACGTAAGCAGTGACTT+CGG - chr7.4:4655330-4655349 None:intergenic 40.0%
ACTTCGGTAGCATAGGAAAC+AGG - chr7.4:4655314-4655333 None:intergenic 45.0%
TCCAAATCCGAGGTTTACCA+TGG + chr7.4:4655119-4655138 MS.gene054379:CDS 45.0%
TCCATGGTAAACCTCGGATT+TGG - chr7.4:4655123-4655142 None:intergenic 45.0%
TTCGTCTCCATGGTAAACCT+CGG - chr7.4:4655129-4655148 None:intergenic 45.0%
!! ATCAAGTGGTGTTGCTGTCA+AGG + chr7.4:4655526-4655545 MS.gene054379:CDS 45.0%
AGCAGTGACTTCGGTAGCAT+AGG - chr7.4:4655321-4655340 None:intergenic 50.0%
CCATGGAGACGAAATGTGTC+AGG + chr7.4:4655136-4655155 MS.gene054379:CDS 50.0%
CCTGACACATTTCGTCTCCA+TGG - chr7.4:4655139-4655158 None:intergenic 50.0%
! TGCTGCTGGTGGTGTTAAAG+AGG + chr7.4:4655583-4655602 MS.gene054379:CDS 50.0%
GAAACTGCTGCTGCTGCTGC+TGG + chr7.4:4655569-4655588 MS.gene054379:CDS 60.0%
ACTGCTGCTGCTGCTGCTGG+TGG + chr7.4:4655572-4655591 MS.gene054379:CDS 65.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 4655092 4655610 4655092 ID=MS.gene054379
chr7.4 mRNA 4655092 4655610 4655092 ID=MS.gene054379.t1;Parent=MS.gene054379
chr7.4 exon 4655092 4655610 4655092 ID=MS.gene054379.t1.exon1;Parent=MS.gene054379.t1
chr7.4 CDS 4655092 4655610 4655092 ID=cds.MS.gene054379.t1;Parent=MS.gene054379.t1
Gene Sequence

>MS.gene054379

ATGTCGTTGGTAACAGAAGAAATCAAATCCAAATCCGAGGTTTACCATGGAGACGAAATGTGTCAGGTGAAATCCAAAGAGCTTCTCAAAGAAATCTCTCTCCCAAATGGTCTTTTACCATTGAAAGACATCACTGAAGTTGGTTACAACAGAGAAACAGGTTTTGTTTGGCTGAAACAGAAGAAAAGCATAACACACAAATTCGAAAAGATTGGGAAACCTGTTTCCTATGCTACCGAAGTCACTGCTTACGTTGAAAATGGTAAGATCAAGAAACTGAACGGTGTTAAAACCAAAGAGCTTTTGATTTGGGTTACTTTGTGTGATATTTATATTGATGATCCACCAACTGGTAAAATCACATTCAAAACACCTTCTGGACTTTTTAGAAGTTTCCCTGTTTCTGCTTTTGAAATTGAAGAAGAGAAAGAGAAATCAAGTGGTGTTGCTGTCAAGGAAGTTGCTAACAAGGTCAATGAAACTGCTGCTGCTGCTGCTGGTGGTGTTAAAGAGGTCTAA

Protein sequence

>MS.gene054379.t1

MSLVTEEIKSKSEVYHGDEMCQVKSKELLKEISLPNGLLPLKDITEVGYNRETGFVWLKQKKSITHKFEKIGKPVSYATEVTAYVENGKIKKLNGVKTKELLIWVTLCDIYIDDPPTGKITFKTPSGLFRSFPVSAFEIEEEKEKSSGVAVKEVANKVNETAAAAAGGVKEV