AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36761

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36761.t1 MTR_8g014210 92.991 214 15 0 1 214 1 214 8.13e-143 399
MS.gene36761.t1 MTR_8g445780 69.730 185 56 0 1 185 206 390 1.10e-87 265
MS.gene36761.t1 MTR_8g014260 58.547 234 89 2 1 226 220 453 1.74e-81 251
MS.gene36761.t1 MTR_4g024710 61.111 216 83 1 1 215 116 331 3.11e-81 247
MS.gene36761.t1 MTR_4g024745 61.860 215 81 1 1 214 70 284 6.33e-81 244
MS.gene36761.t1 MTR_8g468840 49.339 227 102 5 6 220 221 446 2.87e-53 178
MS.gene36761.t1 MTR_2g083840 48.069 233 112 6 1 225 221 452 1.41e-52 176
MS.gene36761.t1 MTR_8g077460 64.341 129 46 0 87 215 231 359 3.16e-52 173
MS.gene36761.t1 MTR_8g062270 46.983 232 105 7 4 220 222 450 4.03e-49 167
MS.gene36761.t1 MTR_5g092960 47.186 231 102 5 9 220 229 458 1.05e-47 163
MS.gene36761.t1 MTR_8g058970 44.351 239 118 7 1 225 235 472 3.05e-43 152
MS.gene36761.t1 MTR_8g468810 47.826 207 98 7 1 199 224 428 3.57e-43 151
MS.gene36761.t1 MTR_8g467800 41.102 236 112 6 6 220 220 449 6.05e-42 148
MS.gene36761.t1 MTR_4g032730 41.564 243 104 8 10 220 227 463 1.46e-37 137
MS.gene36761.t1 MTR_8g062310 41.232 211 106 7 9 215 216 412 1.85e-32 122
MS.gene36761.t1 MTR_8g014230 68.831 77 24 0 139 215 13 89 9.59e-32 112
MS.gene36761.t1 MTR_5g092960 50.694 144 62 2 9 144 229 371 1.58e-28 111
MS.gene36761.t1 MTR_8g469020 42.391 184 89 8 50 220 268 447 2.32e-28 111
MS.gene36761.t1 MTR_8g468760 37.931 232 94 7 6 220 217 415 7.38e-28 110
MS.gene36761.t1 MTR_8g062010 38.693 199 110 6 33 220 229 426 6.79e-27 107
MS.gene36761.t1 MTR_8g062080 35.985 264 119 13 8 225 181 440 8.70e-26 104
MS.gene36761.t1 MTR_8g070950 37.306 193 115 5 39 225 237 429 1.46e-25 103
MS.gene36761.t1 MTR_8g058965 37.931 232 130 8 1 220 223 452 8.36e-25 102
MS.gene36761.t1 MTR_8g468810 44.667 150 75 5 1 144 224 371 4.54e-24 99.0
MS.gene36761.t1 MTR_8g014160 31.944 216 92 6 3 215 246 409 4.94e-20 88.2
MS.gene36761.t1 MTR_2g086020 42.029 138 69 5 93 220 175 311 8.28e-20 86.7
MS.gene36761.t1 MTR_8g062300 32.645 242 124 8 6 220 244 473 7.79e-19 85.1
MS.gene36761.t1 MTR_4g050250 37.234 188 104 7 1 177 235 419 1.89e-18 83.6
MS.gene36761.t1 MTR_5g084070 33.005 203 119 8 4 199 202 394 6.63e-16 76.6
MS.gene36761.t1 MTR_8g468810 44.828 87 47 1 1 87 224 309 9.23e-13 67.0
MS.gene36761.t1 MTR_7g032370 29.448 163 99 3 67 225 197 347 1.00e-12 67.0
MS.gene36761.t1 MTR_8g468810 44.828 87 47 1 1 87 224 309 1.12e-12 66.6
MS.gene36761.t1 MTR_8g468810 44.828 87 47 1 1 87 224 309 1.23e-12 66.6
MS.gene36761.t1 MTR_7g032380 36.275 102 61 2 128 225 250 351 1.23e-12 66.6
MS.gene36761.t1 MTR_3g115430 36.449 107 64 3 121 225 16 120 2.92e-12 62.4
MS.gene36761.t1 MTR_7g034115 36.735 98 59 1 125 219 274 371 3.21e-12 65.5
MS.gene36761.t1 MTR_1g041245 37.143 105 60 2 128 226 278 382 3.32e-12 65.5
MS.gene36761.t1 MTR_5g080710 32.000 200 125 7 4 199 228 420 4.12e-12 65.5
MS.gene36761.t1 MTR_3g108560 30.263 152 95 3 50 199 214 356 1.88e-11 63.2
MS.gene36761.t1 MTR_2g020180 33.898 118 70 2 103 219 96 206 3.89e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36761.t1 AT4G26340 28.251 223 141 8 1 215 192 403 1.04e-13 70.1
MS.gene36761.t1 AT3G26920 29.439 214 134 8 8 213 118 322 1.88e-11 63.2
MS.gene36761.t1 AT3G26920 29.439 214 134 8 8 213 118 322 1.88e-11 63.2

Find 49 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATATTTCCGTGGACTTAA+AGG 0.210891 8.2:-78898522 MS.gene36761:CDS
CTTTAAATTGAATAAAAGTT+AGG 0.323748 8.2:+78898627 None:intergenic
AACCTCCTTGGCAATCTCTC+TGG 0.356546 8.2:-78899195 MS.gene36761:CDS
TTTAAGTCCACGGAAATATC+AGG 0.360907 8.2:+78898524 None:intergenic
GCCTAGAGCTCACTCTTTAT+CGG 0.369310 8.2:-78898930 MS.gene36761:CDS
AGGTGTGATACAAGACAATT+AGG 0.379881 8.2:+78898647 None:intergenic
GTTCTTGAAAATTTAGATCA+TGG 0.391710 8.2:+78898968 None:intergenic
TCTGATGTGCCAAGGGCCTC+TGG 0.399227 8.2:-78898474 MS.gene36761:CDS
GATCCGGTGCGTTCATTTCA+AGG 0.404732 8.2:+78899343 None:intergenic
CAGGAACAGTCATCTTTACT+AGG 0.411116 8.2:-78898692 MS.gene36761:CDS
GCGTCCCACCTTCTTTGAAA+AGG 0.432637 8.2:-78899401 MS.gene36761:CDS
ACCTCCTTGGCAATCTCTCT+GGG 0.462671 8.2:-78899194 MS.gene36761:CDS
TTCTTGAAAATTTAGATCAT+GGG 0.468138 8.2:+78898969 None:intergenic
TGCCAAGGAGGTTGTTCAAA+GGG 0.470637 8.2:+78899205 None:intergenic
ATCCCTTTGAACAACCTCCT+TGG 0.481592 8.2:-78899207 MS.gene36761:CDS
ATGTGATTCCGTTGATGTAA+AGG 0.489313 8.2:+78899313 None:intergenic
ATTCAATTTAAAGGATTTCG+TGG 0.496055 8.2:-78898617 MS.gene36761:CDS
GGGACTAAACATCTAGTGTT+GGG 0.507850 8.2:-78899174 MS.gene36761:CDS
TACATCAACGGAATCACATC+CGG 0.515817 8.2:-78899309 MS.gene36761:CDS
GGATGACGGAAGAAAACGGC+TGG 0.517452 8.2:+78899226 None:intergenic
AACAGTCATCTTTACTAGGA+TGG 0.526478 8.2:-78898688 MS.gene36761:CDS
TGGGACTAAACATCTAGTGT+TGG 0.530389 8.2:-78899175 MS.gene36761:CDS
ATGTAAAGGTACTCAAGATC+CGG 0.531961 8.2:+78899327 None:intergenic
TGACACATTCCAGAGGCCCT+TGG 0.534109 8.2:+78898465 None:intergenic
ATTATTAGAACTTGAAGCAT+AGG 0.536850 8.2:+78898868 None:intergenic
CAATTAGGAACACATGGTGT+TGG 0.539182 8.2:+78898662 None:intergenic
TTGACTGAACTGTATGCATA+AGG 0.554292 8.2:-78898434 None:intergenic
TTGCCAAGGAGGTTGTTCAA+AGG 0.562217 8.2:+78899204 None:intergenic
GATTATTCCTGATATTTCCG+TGG 0.562279 8.2:-78898531 MS.gene36761:CDS
CATCATTGATAATGAAGTTG+AGG 0.566259 8.2:-78899370 MS.gene36761:CDS
AAAGGGATGACGGAAGAAAA+CGG 0.567288 8.2:+78899222 None:intergenic
CTTGAGTACCTTTACATCAA+CGG 0.572815 8.2:-78899321 MS.gene36761:CDS
TCTTGAAAATTTAGATCATG+GGG 0.575256 8.2:+78898970 None:intergenic
TCCCAGAGAGATTGCCAAGG+AGG 0.576483 8.2:+78899193 None:intergenic
GTACTTCTCCTTTAAGTCCA+CGG 0.580895 8.2:+78898514 None:intergenic
ATGTACAAATAGTGGCTGCT+TGG 0.600050 8.2:-78898997 MS.gene36761:intron
GAGGTTGTTCAAAGGGATGA+CGG 0.605555 8.2:+78899212 None:intergenic
ACCGATAAAGAGTGAGCTCT+AGG 0.611582 8.2:+78898929 None:intergenic
ATGACGGAAGAAAACGGCTG+GGG 0.611934 8.2:+78899228 None:intergenic
TTACCTTGAAATGAACGCAC+CGG 0.629323 8.2:-78899346 MS.gene36761:CDS
GTTGGGTCGTTCAACAACCA+AGG 0.635068 8.2:-78899157 MS.gene36761:intron
TCTAATAATTCATAACGACA+AGG 0.637330 8.2:-78898854 MS.gene36761:intron
ACAAGACAATTAGGAACACA+TGG 0.644694 8.2:+78898656 None:intergenic
GATGACGGAAGAAAACGGCT+GGG 0.652963 8.2:+78899227 None:intergenic
TAGTCCCAGAGAGATTGCCA+AGG 0.657681 8.2:+78899190 None:intergenic
GTACAACTTGCACAATGTGG+TGG 0.667122 8.2:-78899271 MS.gene36761:CDS
TGGGACGCAAACTTTACCCA+TGG 0.667733 8.2:+78899416 None:intergenic
TTTAAGTTGACACATTCCAG+AGG 0.695966 8.2:+78898458 None:intergenic
CATGTACAACTTGCACAATG+TGG 0.728594 8.2:-78899274 MS.gene36761:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTAATTTATTTCATAAAAAA+TGG + chr8.2:78899073-78899092 None:intergenic 10.0%
!! AAATTATAAATTGCATCTTA+TGG - chr8.2:78899095-78899114 MS.gene36761:intron 15.0%
!! ATAAAATAAAACTTAAACCT+TGG + chr8.2:78898713-78898732 None:intergenic 15.0%
!! CTTTAAATTGAATAAAAGTT+AGG + chr8.2:78899226-78899245 None:intergenic 15.0%
!!! CTAACTTTTATTCAATTTAA+AGG - chr8.2:78899224-78899243 MS.gene36761:CDS 15.0%
!! TTCTTGAAAATTTAGATCAT+GGG + chr8.2:78898884-78898903 None:intergenic 20.0%
! AATATATATGACATCAGAGA+TGG + chr8.2:78898806-78898825 None:intergenic 25.0%
! ATTATTAGAACTTGAAGCAT+AGG + chr8.2:78898985-78899004 None:intergenic 25.0%
! ATTCAATTTAAAGGATTTCG+TGG - chr8.2:78899233-78899252 MS.gene36761:CDS 25.0%
! GTTCTTGAAAATTTAGATCA+TGG + chr8.2:78898885-78898904 None:intergenic 25.0%
! TCTAATAATTCATAACGACA+AGG - chr8.2:78898996-78899015 MS.gene36761:intron 25.0%
! TCTTGAAAATTTAGATCATG+GGG + chr8.2:78898883-78898902 None:intergenic 25.0%
AAAAAATATCTGATGTGCCA+AGG - chr8.2:78899368-78899387 MS.gene36761:CDS 30.0%
AAAAATATCTGATGTGCCAA+GGG - chr8.2:78899369-78899388 MS.gene36761:CDS 30.0%
TTGATGTCATGTACAAATAG+TGG - chr8.2:78898845-78898864 MS.gene36761:intron 30.0%
! ATTGTCAACCTTTTCAAAGA+AGG + chr8.2:78898460-78898479 None:intergenic 30.0%
! GCTGAGTATGTTTTACAAAA+AGG - chr8.2:78899278-78899297 MS.gene36761:CDS 30.0%
! TGTTTTGTCGAAGCTTAATT+TGG - chr8.2:78899021-78899040 MS.gene36761:intron 30.0%
!! CATCATTGATAATGAAGTTG+AGG - chr8.2:78898480-78898499 MS.gene36761:CDS 30.0%
AACAGTCATCTTTACTAGGA+TGG - chr8.2:78899162-78899181 MS.gene36761:CDS 35.0%
ACAAGACAATTAGGAACACA+TGG + chr8.2:78899197-78899216 None:intergenic 35.0%
AGGTGTGATACAAGACAATT+AGG + chr8.2:78899206-78899225 None:intergenic 35.0%
ATAAATTGCATCTTATGGCC+TGG - chr8.2:78899100-78899119 MS.gene36761:intron 35.0%
ATGTGATTCCGTTGATGTAA+AGG + chr8.2:78898540-78898559 None:intergenic 35.0%
CTTGAGTACCTTTACATCAA+CGG - chr8.2:78898529-78898548 MS.gene36761:CDS 35.0%
GATTATTCCTGATATTTCCG+TGG - chr8.2:78899319-78899338 MS.gene36761:CDS 35.0%
TGATATTTCCGTGGACTTAA+AGG - chr8.2:78899328-78899347 MS.gene36761:CDS 35.0%
TTTAAGTCCACGGAAATATC+AGG + chr8.2:78899329-78899348 None:intergenic 35.0%
! TCAACCTTTTCAAAGAAGGT+GGG + chr8.2:78898456-78898475 None:intergenic 35.0%
! TCTATGTTAAGTTGTGTACC+AGG + chr8.2:78899121-78899140 None:intergenic 35.0%
!! ATGTAAAGGTACTCAAGATC+CGG + chr8.2:78898526-78898545 None:intergenic 35.0%
!! TTTAAGTTGACACATTCCAG+AGG + chr8.2:78899395-78899414 None:intergenic 35.0%
ATGTACAAATAGTGGCTGCT+TGG - chr8.2:78898853-78898872 MS.gene36761:intron 40.0%
CAATTAGGAACACATGGTGT+TGG + chr8.2:78899191-78899210 None:intergenic 40.0%
CAGGAACAGTCATCTTTACT+AGG - chr8.2:78899158-78899177 MS.gene36761:CDS 40.0%
CATGTACAACTTGCACAATG+TGG - chr8.2:78898576-78898595 MS.gene36761:CDS 40.0%
GGGACTAAACATCTAGTGTT+GGG - chr8.2:78898676-78898695 MS.gene36761:CDS 40.0%
GTAAAGATGACTGTTCCTGT+AGG + chr8.2:78899157-78899176 None:intergenic 40.0%
GTACATGCTAAAAACTTCGC+CGG + chr8.2:78898563-78898582 None:intergenic 40.0%
GTACTTCTCCTTTAAGTCCA+CGG + chr8.2:78899339-78899358 None:intergenic 40.0%
TACATCAACGGAATCACATC+CGG - chr8.2:78898541-78898560 MS.gene36761:CDS 40.0%
TGGGACTAAACATCTAGTGT+TGG - chr8.2:78898675-78898694 MS.gene36761:CDS 40.0%
TTACCTTGAAATGAACGCAC+CGG - chr8.2:78898504-78898523 MS.gene36761:CDS 40.0%
! AGGATTTCGTGGATTTTCAG+AGG - chr8.2:78899244-78899263 MS.gene36761:CDS 40.0%
! ATTTCGTGGATTTTCAGAGG+AGG - chr8.2:78899247-78899266 MS.gene36761:CDS 40.0%
! GTCAACCTTTTCAAAGAAGG+TGG + chr8.2:78898457-78898476 None:intergenic 40.0%
!! AAAGGGATGACGGAAGAAAA+CGG + chr8.2:78898631-78898650 None:intergenic 40.0%
!! GAACATGTTTTGTTGCCTAC+AGG - chr8.2:78899139-78899158 MS.gene36761:intron 40.0%
ACCGATAAAGAGTGAGCTCT+AGG + chr8.2:78898924-78898943 None:intergenic 45.0%
ATCCCTTTGAACAACCTCCT+TGG - chr8.2:78898643-78898662 MS.gene36761:CDS 45.0%
GAGGTTGTTCAAAGGGATGA+CGG + chr8.2:78898641-78898660 None:intergenic 45.0%
GCCTAGAGCTCACTCTTTAT+CGG - chr8.2:78898920-78898939 MS.gene36761:CDS 45.0%
GTACAACTTGCACAATGTGG+TGG - chr8.2:78898579-78898598 MS.gene36761:CDS 45.0%
TGCCAAGGAGGTTGTTCAAA+GGG + chr8.2:78898648-78898667 None:intergenic 45.0%
TTGCCAAGGAGGTTGTTCAA+AGG + chr8.2:78898649-78898668 None:intergenic 45.0%
AACCTCCTTGGCAATCTCTC+TGG - chr8.2:78898655-78898674 MS.gene36761:CDS 50.0%
ACCTCCTTGGCAATCTCTCT+GGG - chr8.2:78898656-78898675 MS.gene36761:CDS 50.0%
GATCCGGTGCGTTCATTTCA+AGG + chr8.2:78898510-78898529 None:intergenic 50.0%
GTTGGGTCGTTCAACAACCA+AGG - chr8.2:78898693-78898712 MS.gene36761:intron 50.0%
TAGTCCCAGAGAGATTGCCA+AGG + chr8.2:78898663-78898682 None:intergenic 50.0%
! ATGACGGAAGAAAACGGCTG+GGG + chr8.2:78898625-78898644 None:intergenic 50.0%
! GCGTCCCACCTTCTTTGAAA+AGG - chr8.2:78898449-78898468 MS.gene36761:CDS 50.0%
!! GATGACGGAAGAAAACGGCT+GGG + chr8.2:78898626-78898645 None:intergenic 50.0%
TCCCAGAGAGATTGCCAAGG+AGG + chr8.2:78898660-78898679 None:intergenic 55.0%
TGACACATTCCAGAGGCCCT+TGG + chr8.2:78899388-78899407 None:intergenic 55.0%
!! GGATGACGGAAGAAAACGGC+TGG + chr8.2:78898627-78898646 None:intergenic 55.0%
TCTGATGTGCCAAGGGCCTC+TGG - chr8.2:78899376-78899395 MS.gene36761:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 78898436 78899436 78898436 ID=MS.gene36761
chr8.2 mRNA 78898436 78899436 78898436 ID=MS.gene36761.t1;Parent=MS.gene36761
chr8.2 exon 78899158 78899436 78899158 ID=MS.gene36761.t1.exon1;Parent=MS.gene36761.t1
chr8.2 CDS 78899158 78899436 78899158 ID=cds.MS.gene36761.t1;Parent=MS.gene36761.t1
chr8.2 exon 78898855 78899007 78898855 ID=MS.gene36761.t1.exon2;Parent=MS.gene36761.t1
chr8.2 CDS 78898855 78899007 78898855 ID=cds.MS.gene36761.t1;Parent=MS.gene36761.t1
chr8.2 exon 78898436 78898711 78898436 ID=MS.gene36761.t1.exon3;Parent=MS.gene36761.t1
chr8.2 CDS 78898436 78898711 78898436 ID=cds.MS.gene36761.t1;Parent=MS.gene36761.t1
Gene Sequence

>MS.gene36761

ATGGGTAAAGTTTGCGTCCCACCTTCTTTGAAAAGGTTGACAATCATCATTGATAATGAAGTTGAGGCTTACCTTGAAATGAACGCACCGGATCTTGAGTACCTTTACATCAACGGAATCACATCCGGCGAAGTTTTTAGCATGTACAACTTGCACAATGTGGTGGAAGCACATCTTAATGTTTTTCCCCAGCCGTTTTCTTCCGTCATCCCTTTGAACAACCTCCTTGGCAATCTCTCTGGGACTAAACATCTAGTGTTGGGTCGTTCAACAACCAAGGTTTAAGTTTTATTTTATATTTTCATCAAATGTTATCTCACTTATATAGAGATTAAGTTCAAACTAGTTACAAACTATTGATTAACTACCATCTCTGATGTCATATATATTGTTTTGTACTAATTACTATTTGATGTCATGTACAAATAGTGGCTGCTTGGAGAGCCCCATGATCTAAATTTTCAAGAACTTCGCTATTTGCTTCGCCTAGAGCTCACTCTTTATCGGTACAACTTCAATTCTGTACTGAACTTGCTTCAAAAGTGTCCTATGCTTCAAGTTCTAATAATTCATAACGACAAGGTTTGTTTTGTCGAAGCTTAATTTGGTTTATATAACTTTGATGTGAAAATTACCATTTTTTATGAAATAAATTACAAAAATTATAAATTGCATCTTATGGCCTGGTACACAACTTAACATAGAACATGTTTTGTTGCCTACAGGAACAGTCATCTTTACTAGGATGGACTCCAACACCATGTGTTCCTAATTGTCTTGTATCACACCTAACTTTTATTCAATTTAAAGGATTTCGTGGATTTTCAGAGGAGGTGTCATTTGCTGAGTATGTTTTACAAAAAGGACTTGTTTTAAAGACAGTGATTATTCCTGATATTTCCGTGGACTTAAAGGAGAAGTACGACATTCTCAAAAAATATCTGATGTGCCAAGGGCCTCTGGAATGTGTCAACTTAAATTTGACTGAACTGTATGCATAA
Protein sequence

>MS.gene36761.t1

MGKVCVPPSLKRLTIIIDNEVEAYLEMNAPDLEYLYINGITSGEVFSMYNLHNVVEAHLNVFPQPFSSVIPLNNLLGNLSGTKHLVLGRSTTKWLLGEPHDLNFQELRYLLRLELTLYRYNFNSVLNLLQKCPMLQVLIIHNDKEQSSLLGWTPTPCVPNCLVSHLTFIQFKGFRGFSEEVSFAEYVLQKGLVLKTVIIPDISVDLKEKYDILKKYLMCQGPLECVNLNLTELYA