AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene02045

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene02045.t1 MTR_2g029180 100.000 263 0 0 1 263 146 408 0.0 526
MS.gene02045.t1 MTR_3g049400 55.200 250 107 4 1 248 153 399 4.31e-82 252
MS.gene02045.t1 MTR_2g022700 54.800 250 108 4 1 248 147 393 1.65e-81 250
MS.gene02045.t1 MTR_4g131800 50.741 270 109 5 1 247 144 412 2.86e-67 225
MS.gene02045.t1 MTR_4g105630 44.048 252 135 4 4 252 131 379 5.31e-59 192
MS.gene02045.t1 MTR_6g005480 46.154 260 135 4 3 258 158 416 1.06e-58 192
MS.gene02045.t1 MTR_4g088350 42.045 264 138 6 2 261 32 284 1.38e-57 186
MS.gene02045.t1 MTR_5g044220 40.625 256 142 5 5 256 151 400 2.55e-56 186
MS.gene02045.t1 MTR_4g088350 42.045 264 138 6 2 261 143 395 5.07e-56 185
MS.gene02045.t1 MTR_4g105630 43.210 243 132 4 4 243 131 370 5.31e-55 181
MS.gene02045.t1 MTR_3g077640 44.531 256 136 4 4 256 156 408 4.55e-54 180
MS.gene02045.t1 MTR_4g105630 40.816 196 110 4 4 196 131 323 1.32e-34 127
MS.gene02045.t1 MTR_4g105630 41.143 175 95 3 4 170 131 305 1.17e-31 119
MS.gene02045.t1 MTR_3g072380 29.046 241 164 4 7 245 67 302 1.01e-19 87.4
MS.gene02045.t1 MTR_1g030320 28.099 242 165 6 7 245 66 301 1.16e-17 81.6
MS.gene02045.t1 MTR_3g070000 24.800 250 181 5 7 253 77 322 9.61e-15 73.2
MS.gene02045.t1 MTR_4g101860 28.571 217 147 4 40 253 139 350 1.24e-14 73.2
MS.gene02045.t1 MTR_4g018760 26.383 235 167 4 16 248 75 305 1.60e-14 72.4
MS.gene02045.t1 MTR_5g081710 25.806 217 155 4 39 253 94 306 1.37e-13 69.7
MS.gene02045.t1 MTR_3g462070 24.434 221 157 6 39 256 95 308 1.18e-12 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene02045.t1 AT5G17630 83.650 263 43 0 1 263 155 417 2.07e-160 452
MS.gene02045.t1 AT5G54800 55.200 250 107 4 1 248 140 386 2.88e-82 252
MS.gene02045.t1 AT1G61800 52.800 250 113 4 1 248 140 386 1.86e-80 247
MS.gene02045.t1 AT1G61800 52.610 249 113 4 1 247 140 385 2.10e-79 245
MS.gene02045.t1 AT5G46110 39.623 265 150 5 2 262 39 297 1.15e-57 186
MS.gene02045.t1 AT5G46110 39.623 265 150 5 2 262 152 410 1.86e-56 186
MS.gene02045.t1 AT5G46110 40.530 264 142 6 2 261 152 404 3.21e-55 183
MS.gene02045.t1 AT5G46110 38.491 265 142 6 2 262 152 399 3.85e-52 175
MS.gene02045.t1 AT3G01550 44.177 249 130 4 3 248 124 366 6.10e-52 174
MS.gene02045.t1 AT3G01550 44.177 249 135 3 3 248 124 371 6.30e-52 174
MS.gene02045.t1 AT5G33320 41.406 256 146 3 3 256 153 406 2.44e-48 165
MS.gene02045.t1 AT4G03950 36.864 236 103 7 27 257 67 261 2.18e-33 122
MS.gene02045.t1 AT1G77610 30.769 208 138 3 39 245 94 296 5.85e-20 88.2
MS.gene02045.t1 AT1G21870 27.801 241 167 4 7 245 67 302 5.37e-19 85.5
MS.gene02045.t1 AT1G12500 26.667 225 154 5 40 261 145 361 9.50e-15 73.6
MS.gene02045.t1 AT5G05820 24.603 252 179 6 7 253 63 308 5.03e-13 68.2
MS.gene02045.t1 AT3G11320 25.114 219 154 5 39 253 96 308 2.60e-12 65.9

Find 42 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGATCTGCCATTGCTATTCT+TGG 0.173141 2.2:+58758035 MS.gene02045:CDS
CCATTTGGATGCTTGTTCTT+TGG 0.202656 2.2:+58757328 None:intergenic
AGTGATTGTGTCTTCGATTT+TGG 0.242143 2.2:+58757977 MS.gene02045:CDS
TTTCCAACAGAGAAAGTTAA+TGG 0.242242 2.2:-58757936 None:intergenic
AGCTTGTGTTTCATTCTCTA+AGG 0.279265 2.2:+58757443 MS.gene02045:CDS
CCTTTCATCTTTGCACTACT+TGG 0.280367 2.2:+58757387 MS.gene02045:CDS
TGGTGATAGGTATCCAATTC+AGG 0.283536 2.2:+58757536 MS.gene02045:CDS
CAGAATTTCAAAGAAGTTGA+TGG 0.291099 2.2:+58757702 MS.gene02045:CDS
GTTGATGGTTTGAACTTATA+TGG 0.310417 2.2:+58757717 MS.gene02045:CDS
AGAAGGTTCTCAATGGATTC+CGG 0.340285 2.2:+58757791 MS.gene02045:CDS
ATTGAAAGCCAAACCTGAAT+TGG 0.343853 2.2:-58757549 None:intergenic
ATGGATTCCGGGGTATTATA+AGG 0.347965 2.2:+58757803 MS.gene02045:CDS
GTTAGGCCTCTTAATGGTCT+TGG 0.367474 2.2:+58758014 MS.gene02045:CDS
TTTCTTCTGTTCTTGGTGAT+AGG 0.374490 2.2:+58757523 MS.gene02045:CDS
GATCTGCCATTGCTATTCTT+GGG 0.384636 2.2:+58758036 MS.gene02045:CDS
CCTGCTTTGTTTCACACAAT+AGG 0.391158 2.2:+58757411 MS.gene02045:CDS
TAAGAGGCCTAACCGGATTC+CGG 0.403937 2.2:-58758004 None:intergenic
GAAGGTTCTCAATGGATTCC+GGG 0.413299 2.2:+58757792 MS.gene02045:CDS
AAAGAACAACCAAGCACAAT+TGG 0.428671 2.2:-58757576 None:intergenic
ATAGGTATCCAATTCAGGTT+TGG 0.441304 2.2:+58757541 MS.gene02045:CDS
AATCCGGTTAGGCCTCTTAA+TGG 0.445202 2.2:+58758008 MS.gene02045:CDS
GAGGTATCTTTCAATGTTGG+AGG 0.458201 2.2:+58757612 MS.gene02045:CDS
AGTCCATTAACTTTCTCTGT+TGG 0.459007 2.2:+58757933 MS.gene02045:CDS
AGACCATTAAGAGGCCTAAC+CGG 0.467988 2.2:-58758011 None:intergenic
AAGAAAGCAAAGAAAATTGA+AGG 0.478846 2.2:+58758089 MS.gene02045:CDS
TTCTTTAGCTGCTGTTACTG+AGG 0.482713 2.2:+58757593 MS.gene02045:CDS
ATGGTTTGAACTTATATGGT+TGG 0.489171 2.2:+58757721 MS.gene02045:CDS
TGTGCACTTATTAGCAATGT+TGG 0.491248 2.2:+58757642 MS.gene02045:CDS
TATAAGGCACTTGAAGCGAT+TGG 0.498213 2.2:+58757819 MS.gene02045:CDS
CTTTCAATGTTGGAGGATTG+TGG 0.498343 2.2:+58757619 MS.gene02045:CDS
ACTGAGGTATCTTTCAATGT+TGG 0.506410 2.2:+58757609 MS.gene02045:CDS
TCAATCATCTTATCAAGCAT+TGG 0.516384 2.2:+58757902 MS.gene02045:CDS
TGGTGTTCCGGAATCCGGTT+AGG 0.528399 2.2:+58757997 MS.gene02045:CDS
GCAGATCCAAGACCATTAAG+AGG 0.528834 2.2:-58758020 None:intergenic
CCAAGTAGTGCAAAGATGAA+AGG 0.572958 2.2:-58757387 None:intergenic
AGAAAGCAAAGAAAATTGAA+GGG 0.581786 2.2:+58758090 MS.gene02045:CDS
CCTATTGTGTGAAACAAAGC+AGG 0.603409 2.2:-58757411 None:intergenic
TGGAAATACAATGAAGAGAG+TGG 0.612192 2.2:+58757953 MS.gene02045:CDS
AAAAGTCCCAAGAATAGCAA+TGG 0.616189 2.2:-58758042 None:intergenic
GAAAGCAAAGAAAATTGAAG+GGG 0.622560 2.2:+58758091 MS.gene02045:CDS
TCAAGTGCCTTATAATACCC+CGG 0.643900 2.2:-58757810 None:intergenic
AAGGTTCTCAATGGATTCCG+GGG 0.647653 2.2:+58757793 MS.gene02045:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAAATATAACAGAAAAAAC+AGG - chr2.2:58757507-58757526 None:intergenic 20.0%
!!! TTCATTTATGTATCTTTTTC+CGG + chr2.2:58757755-58757774 MS.gene02045:CDS 20.0%
! AAGAAAGCAAAGAAAATTGA+AGG + chr2.2:58758089-58758108 MS.gene02045:CDS 25.0%
! AGAAAGCAAAGAAAATTGAA+GGG + chr2.2:58758090-58758109 MS.gene02045:CDS 25.0%
!! GTTATATTTTCTTCTGTTCT+TGG + chr2.2:58757516-58757535 MS.gene02045:CDS 25.0%
!!! ATGAAAGGTTTTGAGATTTT+TGG - chr2.2:58757375-58757394 None:intergenic 25.0%
!!! GACTTTTTATATTTGGGTTT+TGG + chr2.2:58757851-58757870 MS.gene02045:CDS 25.0%
ACCCAAATATAAAAAGTCGA+AGG - chr2.2:58757849-58757868 None:intergenic 30.0%
ATGGTTTGAACTTATATGGT+TGG + chr2.2:58757721-58757740 MS.gene02045:CDS 30.0%
CAGAATTTCAAAGAAGTTGA+TGG + chr2.2:58757702-58757721 MS.gene02045:CDS 30.0%
GAAAGCAAAGAAAATTGAAG+GGG + chr2.2:58758091-58758110 MS.gene02045:CDS 30.0%
TCAATCATCTTATCAAGCAT+TGG + chr2.2:58757902-58757921 MS.gene02045:CDS 30.0%
TTTCCAACAGAGAAAGTTAA+TGG - chr2.2:58757939-58757958 None:intergenic 30.0%
! ATTTATGTATCTTTTTCCGG+TGG + chr2.2:58757758-58757777 MS.gene02045:CDS 30.0%
! GCCTTCGACTTTTTATATTT+GGG + chr2.2:58757845-58757864 MS.gene02045:CDS 30.0%
! TCAATTTTACCAATTGTGCT+TGG + chr2.2:58757567-58757586 MS.gene02045:CDS 30.0%
! TTTTTGTAGAAGGTTCTCAA+TGG + chr2.2:58757784-58757803 MS.gene02045:CDS 30.0%
!! GTTGATGGTTTGAACTTATA+TGG + chr2.2:58757717-58757736 MS.gene02045:CDS 30.0%
!!! TATATTTGGGTTTTGGTTTC+TGG + chr2.2:58757858-58757877 MS.gene02045:CDS 30.0%
AAAAGTCCCAAGAATAGCAA+TGG - chr2.2:58758045-58758064 None:intergenic 35.0%
AAAGAACAACCAAGCACAAT+TGG - chr2.2:58757579-58757598 None:intergenic 35.0%
AGCTTGTGTTTCATTCTCTA+AGG + chr2.2:58757443-58757462 MS.gene02045:CDS 35.0%
AGTCCATTAACTTTCTCTGT+TGG + chr2.2:58757933-58757952 MS.gene02045:CDS 35.0%
ATTGAAAGCCAAACCTGAAT+TGG - chr2.2:58757552-58757571 None:intergenic 35.0%
TGGAAATACAATGAAGAGAG+TGG + chr2.2:58757953-58757972 MS.gene02045:CDS 35.0%
TGTGCACTTATTAGCAATGT+TGG + chr2.2:58757642-58757661 MS.gene02045:CDS 35.0%
! ACTGAGGTATCTTTCAATGT+TGG + chr2.2:58757609-58757628 MS.gene02045:CDS 35.0%
! AGTGATTGTGTCTTCGATTT+TGG + chr2.2:58757977-58757996 MS.gene02045:CDS 35.0%
! ATAGGTATCCAATTCAGGTT+TGG + chr2.2:58757541-58757560 MS.gene02045:CDS 35.0%
! CGCCTTCGACTTTTTATATT+TGG + chr2.2:58757844-58757863 MS.gene02045:CDS 35.0%
! TTTCTTCTGTTCTTGGTGAT+AGG + chr2.2:58757523-58757542 MS.gene02045:CDS 35.0%
!!! GGTTTTGAGATTTTTGGACA+AGG - chr2.2:58757369-58757388 None:intergenic 35.0%
CCAAGTAGTGCAAAGATGAA+AGG - chr2.2:58757390-58757409 None:intergenic 40.0%
CCTATTGTGTGAAACAAAGC+AGG - chr2.2:58757414-58757433 None:intergenic 40.0%
CCTTTCATCTTTGCACTACT+TGG + chr2.2:58757387-58757406 MS.gene02045:CDS 40.0%
CTTTCAATGTTGGAGGATTG+TGG + chr2.2:58757619-58757638 MS.gene02045:CDS 40.0%
TCAAGTGCCTTATAATACCC+CGG - chr2.2:58757813-58757832 None:intergenic 40.0%
TGGTGATAGGTATCCAATTC+AGG + chr2.2:58757536-58757555 MS.gene02045:CDS 40.0%
TTCTTTAGCTGCTGTTACTG+AGG + chr2.2:58757593-58757612 MS.gene02045:CDS 40.0%
! AGAAGGTTCTCAATGGATTC+CGG + chr2.2:58757791-58757810 MS.gene02045:CDS 40.0%
! ATGGATTCCGGGGTATTATA+AGG + chr2.2:58757803-58757822 MS.gene02045:CDS 40.0%
! GAGGTATCTTTCAATGTTGG+AGG + chr2.2:58757612-58757631 MS.gene02045:CDS 40.0%
! GATCTGCCATTGCTATTCTT+GGG + chr2.2:58758036-58758055 MS.gene02045:CDS 40.0%
! TATAAGGCACTTGAAGCGAT+TGG + chr2.2:58757819-58757838 MS.gene02045:CDS 40.0%
!! CCTGCTTTGTTTCACACAAT+AGG + chr2.2:58757411-58757430 MS.gene02045:CDS 40.0%
!!! TGTCTTCGATTTTGGTGTTC+CGG + chr2.2:58757985-58758004 MS.gene02045:CDS 40.0%
AATCCGGTTAGGCCTCTTAA+TGG + chr2.2:58758008-58758027 MS.gene02045:CDS 45.0%
AGACCATTAAGAGGCCTAAC+CGG - chr2.2:58758014-58758033 None:intergenic 45.0%
CCTTCTACAAAAATCGCCAC+CGG - chr2.2:58757777-58757796 None:intergenic 45.0%
GCAGATCCAAGACCATTAAG+AGG - chr2.2:58758023-58758042 None:intergenic 45.0%
GTTAGGCCTCTTAATGGTCT+TGG + chr2.2:58758014-58758033 MS.gene02045:CDS 45.0%
! AAGGTTCTCAATGGATTCCG+GGG + chr2.2:58757793-58757812 MS.gene02045:CDS 45.0%
! GAAGGTTCTCAATGGATTCC+GGG + chr2.2:58757792-58757811 MS.gene02045:CDS 45.0%
! GGATCTGCCATTGCTATTCT+TGG + chr2.2:58758035-58758054 MS.gene02045:CDS 45.0%
!!! GATTTTGGTGTTCCGGAATC+CGG + chr2.2:58757992-58758011 MS.gene02045:CDS 45.0%
!!! GCAATGTTGGTTTTGTGCTG+AGG + chr2.2:58757655-58757674 MS.gene02045:CDS 45.0%
TAAGAGGCCTAACCGGATTC+CGG - chr2.2:58758007-58758026 None:intergenic 50.0%
! CCGGTGGCGATTTTTGTAGA+AGG + chr2.2:58757774-58757793 MS.gene02045:CDS 50.0%
TGGTGTTCCGGAATCCGGTT+AGG + chr2.2:58757997-58758016 MS.gene02045:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 58757336 58758127 58757336 ID=MS.gene02045
chr2.2 mRNA 58757336 58758127 58757336 ID=MS.gene02045.t1;Parent=MS.gene02045
chr2.2 exon 58757336 58758127 58757336 ID=MS.gene02045.t1.exon1;Parent=MS.gene02045.t1
chr2.2 CDS 58757336 58758127 58757336 ID=cds.MS.gene02045.t1;Parent=MS.gene02045.t1
Gene Sequence

>MS.gene02045

ATGCTTGTTCTTTGGTCTTTAAAGCTTCAACCTTGTCCAAAAATCTCAAAACCTTTCATCTTTGCACTACTTGGACCTGCTTTGTTTCACACAATAGGTCACATTTCAGCTTGTGTTTCATTCTCTAAGGTTGCTGTGTCTTTCACACATGTTATAAAATCTGCAGAACCTGTTTTTTCTGTTATATTTTCTTCTGTTCTTGGTGATAGGTATCCAATTCAGGTTTGGCTTTCAATTTTACCAATTGTGCTTGGTTGTTCTTTAGCTGCTGTTACTGAGGTATCTTTCAATGTTGGAGGATTGTGGTGTGCACTTATTAGCAATGTTGGTTTTGTGCTGAGGAACATTTATTCGAAAAAAAGTTTGCAGAATTTCAAAGAAGTTGATGGTTTGAACTTATATGGTTGGATTACTATACTTTCATTTATGTATCTTTTTCCGGTGGCGATTTTTGTAGAAGGTTCTCAATGGATTCCGGGGTATTATAAGGCACTTGAAGCGATTGGAACGCCTTCGACTTTTTATATTTGGGTTTTGGTTTCTGGTCTGTTTTATCATCTTTATAATCAATCATCTTATCAAGCATTGGATGAAATTAGTCCATTAACTTTCTCTGTTGGAAATACAATGAAGAGAGTGGTAGTGATTGTGTCTTCGATTTTGGTGTTCCGGAATCCGGTTAGGCCTCTTAATGGTCTTGGATCTGCCATTGCTATTCTTGGGACTTTTCTGTATTCACAAGCTACAGCTGCAAAGAAAGCAAAGAAAATTGAAGGGGAAAAGAGTAGTTAG
Protein sequence

>MS.gene02045.t1

MLVLWSLKLQPCPKISKPFIFALLGPALFHTIGHISACVSFSKVAVSFTHVIKSAEPVFSVIFSSVLGDRYPIQVWLSILPIVLGCSLAAVTEVSFNVGGLWCALISNVGFVLRNIYSKKSLQNFKEVDGLNLYGWITILSFMYLFPVAIFVEGSQWIPGYYKALEAIGTPSTFYIWVLVSGLFYHLYNQSSYQALDEISPLTFSVGNTMKRVVVIVSSILVFRNPVRPLNGLGSAIAILGTFLYSQATAAKKAKKIEGEKSS