AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene54626

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene54626.t1 MTR_1g087870 82.915 199 34 0 1 199 31 229 5.35e-124 350
MS.gene54626.t1 MTR_7g110090 43.814 194 104 1 2 195 84 272 3.35e-57 181
MS.gene54626.t1 MTR_3g452180 43.850 187 100 1 9 195 7 188 3.83e-56 176
MS.gene54626.t1 MTR_4g032560 40.513 195 111 1 1 195 112 301 5.59e-51 166
MS.gene54626.t1 MTR_4g032580 40.513 195 111 1 1 195 112 301 1.63e-50 165
MS.gene54626.t1 MTR_2g100360 44.000 175 98 0 1 175 83 257 4.58e-50 163
MS.gene54626.t1 MTR_3g070250 39.896 193 116 0 1 193 88 280 8.18e-50 163
MS.gene54626.t1 MTR_3g048970 42.268 194 110 2 1 193 83 275 1.31e-49 162
MS.gene54626.t1 MTR_1g084880 42.268 194 110 2 1 193 83 275 3.14e-49 161
MS.gene54626.t1 MTR_1g105780 41.026 195 110 1 1 195 84 273 1.12e-44 149
MS.gene54626.t1 MTR_1g105765 41.026 195 110 1 1 195 84 273 1.15e-44 149
MS.gene54626.t1 MTR_4g121040 39.053 169 98 1 21 189 7 170 7.24e-40 135
MS.gene54626.t1 MTR_1g047540 39.683 189 94 3 2 190 84 252 2.34e-38 137
MS.gene54626.t1 MTR_2g038740 42.138 159 92 0 1 159 83 241 3.68e-38 139
MS.gene54626.t1 MTR_1g069260 37.912 182 96 3 24 193 111 287 1.83e-36 129
MS.gene54626.t1 MTR_4g062370 38.068 176 104 2 1 176 87 257 6.41e-36 133
MS.gene54626.t1 MTR_3g449750 40.426 141 82 2 13 152 31 170 1.31e-32 115
MS.gene54626.t1 MTR_5g094740 36.129 155 90 1 39 193 673 818 1.49e-28 112
MS.gene54626.t1 MTR_3g085990 34.031 191 84 2 1 191 84 232 2.38e-28 106
MS.gene54626.t1 MTR_1g019580 40.164 122 70 1 77 195 9 130 1.45e-26 99.0
MS.gene54626.t1 MTR_4g081330 64.516 62 22 0 113 174 1084 1145 9.13e-26 104
MS.gene54626.t1 MTR_8g042540 48.235 85 44 0 111 195 3 87 3.51e-25 94.0
MS.gene54626.t1 MTR_5g066660 32.105 190 97 3 1 190 83 240 7.16e-25 98.2
MS.gene54626.t1 MTR_8g042540 48.780 82 42 0 114 195 18 99 1.35e-24 92.8
MS.gene54626.t1 MTR_4g117740 32.857 140 60 2 1 140 94 199 1.32e-22 90.5
MS.gene54626.t1 MTR_0521s0010 37.008 127 78 2 14 139 76 201 1.16e-21 89.0
MS.gene54626.t1 MTR_2g016390 38.235 102 63 0 78 179 593 694 3.90e-19 85.1
MS.gene54626.t1 MTR_6g465600 29.381 194 126 2 2 191 90 276 7.58e-19 82.8
MS.gene54626.t1 MTR_5g075200 40.000 100 55 2 1 100 96 190 1.12e-17 77.8
MS.gene54626.t1 MTR_1g052720 27.041 196 128 4 2 192 87 272 7.20e-17 77.4
MS.gene54626.t1 MTR_1g037600 36.842 95 60 0 78 172 60 154 2.06e-16 75.5
MS.gene54626.t1 MTR_4g057880 47.692 65 34 0 129 193 7 71 1.50e-15 68.9
MS.gene54626.t1 MTR_0091s0090 27.461 193 120 6 2 192 6 180 3.97e-15 72.0
MS.gene54626.t1 MTR_0152s0060 38.636 88 53 1 92 179 221 307 1.33e-14 71.6
MS.gene54626.t1 MTR_6g016445 42.373 59 34 0 115 173 10 68 1.47e-12 61.6
MS.gene54626.t1 MTR_1g045920 76.190 42 10 0 1 42 42 83 6.87e-12 63.2
MS.gene54626.t1 MTR_1g054585 30.172 116 61 1 78 193 11 106 1.16e-11 59.7
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 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGAATTGCATCACAATATT+TGG 0.142675 6.1:+2908663 MS.gene54626:CDS
TGATGTTAGCTCTGGATTTC+TGG 0.165668 6.1:+2908466 MS.gene54626:CDS
ACGTTTCACTTCAATGTAAA+TGG 0.237667 6.1:-2908805 None:intergenic
CTTCTCAATTTCAAACTTCA+TGG 0.267710 6.1:-2908330 None:intergenic
TGATGGAATGATAAGATTTC+GGG 0.299432 6.1:-2908395 None:intergenic
ATGATGGAATGATAAGATTT+CGG 0.313619 6.1:-2908396 None:intergenic
TTTACTGGTAATGGTCAGTT+TGG 0.323884 6.1:+2908251 MS.gene54626:CDS
TTCATGGGAGGTATAAATAA+AGG 0.396538 6.1:-2908314 None:intergenic
GTGCCATCGTTTGTTTATCA+AGG 0.414248 6.1:+2908359 MS.gene54626:CDS
TTACTGGTAATGGTCAGTTT+GGG 0.414794 6.1:+2908252 MS.gene54626:CDS
ACTATCGTCATGGTGTTTAC+TGG 0.438683 6.1:+2908236 MS.gene54626:CDS
GATAAGATTTCGGGTGTGAC+TGG 0.446626 6.1:-2908386 None:intergenic
ACTGGATATGATGTTAGCTC+TGG 0.447476 6.1:+2908458 MS.gene54626:CDS
GCATCACAATATTTGGAACT+AGG 0.455508 6.1:+2908670 MS.gene54626:CDS
TCTCAAACTCAAACAACTAC+TGG 0.458362 6.1:-2908828 None:intergenic
TTCTCAATTTCAAACTTCAT+GGG 0.459280 6.1:-2908329 None:intergenic
GGACTATGTGACGTGACAAT+TGG 0.459653 6.1:+2908594 MS.gene54626:CDS
AGCTTGGAGGAGGGTGGAAA+AGG 0.464293 6.1:+2908709 MS.gene54626:CDS
AAGGTGTCGTGGTCAAGGTT+GGG 0.484660 6.1:+2908757 MS.gene54626:CDS
GTCATGGTGTTTACTGGTAA+TGG 0.491948 6.1:+2908242 MS.gene54626:CDS
GAAGGTGTCGTGGTCAAGGT+TGG 0.496737 6.1:+2908756 MS.gene54626:CDS
TGGAGGAGGGTGGAAAAGGA+TGG 0.500308 6.1:+2908713 MS.gene54626:CDS
CCACACCACCACATCAAGCT+TGG 0.515731 6.1:+2908693 MS.gene54626:CDS
GAAAATTGATCTCATCATGA+TGG 0.516547 6.1:-2908412 None:intergenic
CTCCTCCAAGCTTGATGTGG+TGG 0.531491 6.1:-2908698 None:intergenic
CACCACATCAAGCTTGGAGG+AGG 0.534818 6.1:+2908699 MS.gene54626:CDS
AACGCACATTGTAAAAGTCT+CGG 0.537561 6.1:-2908205 None:intergenic
ACCCTCCTCCAAGCTTGATG+TGG 0.545430 6.1:-2908701 None:intergenic
TGAAGAAGGTGTCGTGGTCA+AGG 0.545787 6.1:+2908752 MS.gene54626:CDS
CCAAGCTTGATGTGGTGGTG+TGG 0.547240 6.1:-2908693 None:intergenic
CACCACCACATCAAGCTTGG+AGG 0.557816 6.1:+2908696 MS.gene54626:CDS
GTCATGGTGGAAAGGATAAG+TGG 0.571095 6.1:+2908149 None:intergenic
AAGGTTGGGTTTCGACACGC+TGG 0.587337 6.1:+2908771 MS.gene54626:CDS
AGTTTGATGTCATGGTGGAA+AGG 0.589089 6.1:+2908141 None:intergenic
TCAATTTCAAACTTCATGGG+AGG 0.602862 6.1:-2908326 None:intergenic
TTGCAGATGCTAATTTACAA+AGG 0.604896 6.1:+2908573 MS.gene54626:intron
ACATCAAGCTTGGAGGAGGG+TGG 0.613250 6.1:+2908703 MS.gene54626:CDS
TTGACGATTGTGGGAACAAG+TGG 0.630425 6.1:+2908643 MS.gene54626:CDS
ACCACATCAAGCTTGGAGGA+GGG 0.639220 6.1:+2908700 MS.gene54626:CDS
GCTGCGCGGAGACTTGAAGA+AGG 0.643869 6.1:+2908738 MS.gene54626:CDS
TTTAGGCGGAACTATCGTCA+TGG 0.647378 6.1:+2908226 MS.gene54626:CDS
ATTAACGTACTTGATCGAGC+AGG 0.652929 6.1:+2908275 MS.gene54626:CDS
ATGGGAGGTATAAATAAAGG+AGG 0.660218 6.1:-2908311 None:intergenic
GAGACTTGAAGAAGGTGTCG+TGG 0.672602 6.1:+2908746 MS.gene54626:CDS
ACACCTTGATAAACAAACGA+TGG 0.686570 6.1:-2908362 None:intergenic
GGAAAAGGATGGTTGCTGCG+CGG 0.715685 6.1:+2908724 MS.gene54626:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTCTCAATTTCAAACTTCAT+GGG - chr6.1:2908332-2908351 None:intergenic 25.0%
!! ATGATGGAATGATAAGATTT+CGG - chr6.1:2908399-2908418 None:intergenic 25.0%
ACGTTTCACTTCAATGTAAA+TGG - chr6.1:2908808-2908827 None:intergenic 30.0%
CTTCTCAATTTCAAACTTCA+TGG - chr6.1:2908333-2908352 None:intergenic 30.0%
GAAAATTGATCTCATCATGA+TGG - chr6.1:2908415-2908434 None:intergenic 30.0%
TGATGGAATGATAAGATTTC+GGG - chr6.1:2908398-2908417 None:intergenic 30.0%
TGGAATTGCATCACAATATT+TGG + chr6.1:2908663-2908682 MS.gene54626:CDS 30.0%
TTGCAGATGCTAATTTACAA+AGG + chr6.1:2908573-2908592 MS.gene54626:intron 30.0%
! AGATCAATTTTCAGATAAGC+TGG + chr6.1:2908423-2908442 MS.gene54626:CDS 30.0%
! GATCAATTTTCAGATAAGCT+GGG + chr6.1:2908424-2908443 MS.gene54626:CDS 30.0%
! TTCATGGGAGGTATAAATAA+AGG - chr6.1:2908317-2908336 None:intergenic 30.0%
!!! GGAGTTGTTTTTTTAACAAC+TGG + chr6.1:2908170-2908189 MS.gene54626:CDS 30.0%
AACGCACATTGTAAAAGTCT+CGG - chr6.1:2908208-2908227 None:intergenic 35.0%
ACACCTTGATAAACAAACGA+TGG - chr6.1:2908365-2908384 None:intergenic 35.0%
TCAATTTCAAACTTCATGGG+AGG - chr6.1:2908329-2908348 None:intergenic 35.0%
! ATGGGAGGTATAAATAAAGG+AGG - chr6.1:2908314-2908333 None:intergenic 35.0%
! GACTTTTACAATGTGCGTTT+AGG + chr6.1:2908209-2908228 MS.gene54626:CDS 35.0%
! GCATCACAATATTTGGAACT+AGG + chr6.1:2908670-2908689 MS.gene54626:CDS 35.0%
! TGATTTTGCTTGACGATTGT+GGG + chr6.1:2908634-2908653 MS.gene54626:CDS 35.0%
! TTGATTTTGCTTGACGATTG+TGG + chr6.1:2908633-2908652 MS.gene54626:CDS 35.0%
! TTTTACAATGTGCGTTTAGG+CGG + chr6.1:2908212-2908231 MS.gene54626:CDS 35.0%
!! TTACTGGTAATGGTCAGTTT+GGG + chr6.1:2908252-2908271 MS.gene54626:CDS 35.0%
!! TTTACTGGTAATGGTCAGTT+TGG + chr6.1:2908251-2908270 MS.gene54626:CDS 35.0%
ACTATCGTCATGGTGTTTAC+TGG + chr6.1:2908236-2908255 MS.gene54626:CDS 40.0%
ACTGGATATGATGTTAGCTC+TGG + chr6.1:2908458-2908477 MS.gene54626:CDS 40.0%
ATTAACGTACTTGATCGAGC+AGG + chr6.1:2908275-2908294 MS.gene54626:CDS 40.0%
GTCATGGTGTTTACTGGTAA+TGG + chr6.1:2908242-2908261 MS.gene54626:CDS 40.0%
GTGCCATCGTTTGTTTATCA+AGG + chr6.1:2908359-2908378 MS.gene54626:CDS 40.0%
!! TGATGTTAGCTCTGGATTTC+TGG + chr6.1:2908466-2908485 MS.gene54626:CDS 40.0%
GGACTATGTGACGTGACAAT+TGG + chr6.1:2908594-2908613 MS.gene54626:CDS 45.0%
TTGACGATTGTGGGAACAAG+TGG + chr6.1:2908643-2908662 MS.gene54626:CDS 45.0%
TTTAGGCGGAACTATCGTCA+TGG + chr6.1:2908226-2908245 MS.gene54626:CDS 45.0%
! GATAAGATTTCGGGTGTGAC+TGG - chr6.1:2908389-2908408 None:intergenic 45.0%
!! AGCTGGGAAAAAGTGTTGAC+TGG + chr6.1:2908440-2908459 MS.gene54626:CDS 45.0%
ACCACATCAAGCTTGGAGGA+GGG + chr6.1:2908700-2908719 MS.gene54626:CDS 50.0%
!! AAGGTGTCGTGGTCAAGGTT+GGG + chr6.1:2908757-2908776 MS.gene54626:CDS 50.0%
!! GAGACTTGAAGAAGGTGTCG+TGG + chr6.1:2908746-2908765 MS.gene54626:CDS 50.0%
!! TGAAGAAGGTGTCGTGGTCA+AGG + chr6.1:2908752-2908771 MS.gene54626:CDS 50.0%
AAGGTTGGGTTTCGACACGC+TGG + chr6.1:2908771-2908790 MS.gene54626:CDS 55.0%
ACATCAAGCTTGGAGGAGGG+TGG + chr6.1:2908703-2908722 MS.gene54626:CDS 55.0%
ACCCTCCTCCAAGCTTGATG+TGG - chr6.1:2908704-2908723 None:intergenic 55.0%
AGCTTGGAGGAGGGTGGAAA+AGG + chr6.1:2908709-2908728 MS.gene54626:CDS 55.0%
CACCACATCAAGCTTGGAGG+AGG + chr6.1:2908699-2908718 MS.gene54626:CDS 55.0%
CACCACCACATCAAGCTTGG+AGG + chr6.1:2908696-2908715 MS.gene54626:CDS 55.0%
CCACACCACCACATCAAGCT+TGG + chr6.1:2908693-2908712 MS.gene54626:CDS 55.0%
CTCCTCCAAGCTTGATGTGG+TGG - chr6.1:2908701-2908720 None:intergenic 55.0%
GGAAAAGGATGGTTGCTGCG+CGG + chr6.1:2908724-2908743 MS.gene54626:CDS 55.0%
TGGAGGAGGGTGGAAAAGGA+TGG + chr6.1:2908713-2908732 MS.gene54626:CDS 55.0%
! CCAAGCTTGATGTGGTGGTG+TGG - chr6.1:2908696-2908715 None:intergenic 55.0%
!! GAAGGTGTCGTGGTCAAGGT+TGG + chr6.1:2908756-2908775 MS.gene54626:CDS 55.0%
GCTGCGCGGAGACTTGAAGA+AGG + chr6.1:2908738-2908757 MS.gene54626:CDS 60.0%


Chromosome Type Strat End Strand Name
chr6.1 gene 2908152 2908842 2908152 ID=MS.gene54626
chr6.1 mRNA 2908152 2908842 2908152 ID=MS.gene54626.t1;Parent=MS.gene54626
chr6.1 exon 2908152 2908487 2908152 ID=MS.gene54626.t1.exon1;Parent=MS.gene54626.t1
chr6.1 CDS 2908152 2908487 2908152 ID=cds.MS.gene54626.t1;Parent=MS.gene54626.t1
chr6.1 exon 2908579 2908842 2908579 ID=MS.gene54626.t1.exon2;Parent=MS.gene54626.t1
chr6.1 CDS 2908579 2908842 2908579 ID=cds.MS.gene54626.t1;Parent=MS.gene54626.t1
Gene Sequence

>MS.gene54626

ATGGTGGAAAGGATAAGTGGAGTTGTTTTTTTAACAACTGGATTCAATGCGATCCGAGACTTTTACAATGTGCGTTTAGGCGGAACTATCGTCATGGTGTTTACTGGTAATGGTCAGTTTGGGATTAACGTACTTGATCGAGCAGGACGTGTTGTTGATCCTCCTTTATTTATACCTCCCATGAAGTTTGAAATTGAGAAGACAATTGTGCCATCGTTTGTTTATCAAGGTGTGCCAGTCACACCCGAAATCTTATCATTCCATCATGATGAGATCAATTTTCAGATAAGCTGGGAAAAAGTGTTGACTGGATATGATGTTAGCTCTGGATTTCTGGTATAAGTTTGATGTATTAGTATTGCTCACATAAACAGTTATTTTTAGCATATATACATTTGTTTGTATTAACACATCTTGATGTTTGCAGATGCTAATTTACAAAGGACTATGTGACGTGACAATTGGCAAGAAGACAACTTCATTGATTTTGCTTGACGATTGTGGGAACAAGTGGAATTGCATCACAATATTTGGAACTAGGCCACACCACCACATCAAGCTTGGAGGAGGGTGGAAAAGGATGGTTGCTGCGCGGAGACTTGAAGAAGGTGTCGTGGTCAAGGTTGGGTTTCGACACGCTGGAAAGAACGATACCATTTACATTGAAGTGAAACGTCCAGTAGTTGTTTGA
Protein sequence

>MS.gene54626.t1

MVERISGVVFLTTGFNAIRDFYNVRLGGTIVMVFTGNGQFGINVLDRAGRVVDPPLFIPPMKFEIEKTIVPSFVYQGVPVTPEILSFHHDEINFQISWEKVLTGYDVSSGFLMLIYKGLCDVTIGKKTTSLILLDDCGNKWNCITIFGTRPHHHIKLGGGWKRMVAARRLEEGVVVKVGFRHAGKNDTIYIEVKRPVVV