AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene83227


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83227.t1 MTR_2g055990 95.402 261 9 2 1 260 1 259 0.0 514
MS.gene83227.t1 MTR_4g112370 74.902 255 51 5 8 260 17 260 8.52e-130 368
MS.gene83227.t1 MTR_2g054380 68.852 183 55 2 78 260 90 270 1.21e-84 254
MS.gene83227.t1 MTR_1g053130 58.382 173 67 2 93 260 112 284 4.57e-59 189
MS.gene83227.t1 MTR_3g094830 44.643 168 88 4 94 260 96 259 1.37e-47 159
MS.gene83227.t1 MTR_8g040690 43.787 169 87 4 94 260 85 247 2.22e-46 155
MS.gene83227.t1 MTR_8g040680 43.195 169 88 4 94 260 95 257 2.47e-44 150
MS.gene83227.t1 MTR_3g101300 45.000 180 89 5 86 259 60 235 3.27e-44 149
MS.gene83227.t1 MTR_7g064810 45.732 164 82 4 97 259 65 222 5.77e-39 135
MS.gene83227.t1 MTR_3g086740 36.723 177 103 5 87 259 71 242 5.89e-32 118
MS.gene83227.t1 MTR_8g089865 37.576 165 96 5 99 259 59 220 1.35e-29 111
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83227.t1 AT5G23100 56.338 284 89 6 4 260 2 277 1.13e-93 277
MS.gene83227.t1 AT3G25640 53.208 265 107 5 4 260 12 267 1.37e-79 241
MS.gene83227.t1 AT3G25640 53.462 260 104 5 9 260 43 293 1.73e-79 241
MS.gene83227.t1 AT2G41660 53.409 176 71 4 93 260 125 297 4.05e-59 189
MS.gene83227.t1 AT4G39610 44.186 172 88 2 95 260 95 264 2.98e-51 168
MS.gene83227.t1 AT5G06990 47.727 176 79 4 94 260 90 261 8.43e-50 164
MS.gene83227.t1 AT2G21990 45.509 167 87 2 94 260 90 252 1.26e-49 164
MS.gene83227.t1 AT2G37880 46.988 166 83 3 97 259 81 244 3.53e-45 152
MS.gene83227.t1 AT5G42680 47.239 163 79 4 99 259 79 236 3.44e-43 147
MS.gene83227.t1 AT5G42680 47.239 163 79 4 99 259 79 236 3.44e-43 147
MS.gene83227.t1 AT1G21050 42.945 163 84 3 99 259 89 244 3.23e-39 137
MS.gene83227.t1 AT1G21050 42.945 163 84 3 99 259 125 280 5.81e-39 137
MS.gene83227.t1 AT5G65340 42.012 169 86 4 99 259 85 249 4.15e-34 124
MS.gene83227.t1 AT1G76610 44.048 168 77 4 94 259 73 225 5.25e-34 123
MS.gene83227.t1 AT2G22460 40.491 163 90 3 97 258 85 241 4.48e-30 113

Find 62 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGAACACGCCTTTCGGCCT+TGG 0.280876 2.4:+34715012 MS.gene83227:CDS
TTGGTTCGCGAAATGGCATC+TGG 0.293992 2.4:+34715153 MS.gene83227:CDS
CAGCGGTTTGGTTCGCGAAA+TGG 0.374279 2.4:+34715146 MS.gene83227:CDS
GGCCTTGGTTCTCGTGTAGT+TGG 0.374500 2.4:+34715027 MS.gene83227:CDS
GTTATACCAGGGACTGATAA+TGG 0.382078 2.4:+34715366 MS.gene83227:CDS
AACCGGTCGAACACGCCTTT+CGG 0.389841 2.4:+34715006 MS.gene83227:CDS
TGTTGCAAGCTCAATCAAAA+AGG 0.391243 2.4:-34715118 None:intergenic
TCAGGAACACCATTGCTATC+AGG 0.394368 2.4:-34715486 None:intergenic
GCAAAGTTTGAGAGAATTGT+TGG 0.396020 2.4:+34715429 MS.gene83227:CDS
CGTGTAGTTGGAACACTCTT+CGG 0.401610 2.4:+34715039 MS.gene83227:CDS
CGCTCAGCTCTCACCGTGTT+CGG 0.408847 2.4:+34714979 MS.gene83227:CDS
TGAGAGCAGTGGCGATTTCA+AGG 0.411124 2.4:+34714953 MS.gene83227:CDS
TCTCCTTGTTGCATGTGCAT+TGG 0.421741 2.4:-34714926 None:intergenic
GGCCGAAAGGCGTGTTCGAC+CGG 0.429701 2.4:-34715008 None:intergenic
TGCAACACCGATCAGCGGTT+TGG 0.451076 2.4:+34715134 MS.gene83227:CDS
CCGAAGAGAATGCGGGCAAA+AGG 0.452366 2.4:+34715296 MS.gene83227:CDS
ACACCAGCACCCATTGAAAT+CGG 0.454573 2.4:-34715345 None:intergenic
TGGGTCAGTAAGAATTGCTC+TGG 0.468506 2.4:+34715173 MS.gene83227:CDS
TCACCGTGTTCGGCAAGAAC+CGG 0.473449 2.4:+34714989 MS.gene83227:CDS
AGCAAATAAATACTAAGCTC+AGG 0.482261 2.4:-34715504 None:intergenic
AGCTGTGGAGCCGATTTCAA+TGG 0.488272 2.4:+34715335 MS.gene83227:CDS
CAAAGTTTGAGAGAATTGTT+GGG 0.491568 2.4:+34715430 MS.gene83227:CDS
AACAAGGTTGGAACTGAAGA+TGG 0.498226 2.4:+34714802 MS.gene83227:CDS
ATGGGTGCTGGTGTTATACC+AGG 0.505030 2.4:+34715354 MS.gene83227:CDS
GAGAATGCGGGCAAAAGGAG+TGG 0.513741 2.4:+34715301 MS.gene83227:CDS
TTTCATTGGACAAACAAGGT+TGG 0.516802 2.4:+34714790 MS.gene83227:CDS
TCTGCTCCATTATCAGTCCC+TGG 0.519108 2.4:-34715372 None:intergenic
AAGCAGAGAAGAAAAGCTTA+AGG 0.521495 2.4:+34715214 MS.gene83227:CDS
ACTGATAATGGAGCAGAAGC+AGG 0.532733 2.4:+34715378 MS.gene83227:CDS
GCTGTGGAGCCGATTTCAAT+GGG 0.538795 2.4:+34715336 MS.gene83227:CDS
TGGTTCGCGAAATGGCATCT+GGG 0.541090 2.4:+34715154 MS.gene83227:CDS
CGACCGGTTCTTGCCGAACA+CGG 0.544927 2.4:-34714992 None:intergenic
TGGAGCAGAAGCAGGACAAG+AGG 0.545912 2.4:+34715386 MS.gene83227:CDS
GAGCCGATTTCAATGGGTGC+TGG 0.554131 2.4:+34715342 MS.gene83227:CDS
TTCGACTCTCATTCAGAAGG+AGG 0.560890 2.4:+34714849 MS.gene83227:CDS
GGATAAGAAAGAGGCTGACA+AGG 0.563529 2.4:+34714870 MS.gene83227:CDS
TGACAAGGTTGTTGATCCTG+AGG 0.564550 2.4:+34714885 MS.gene83227:CDS
TATTGCAATGGCAAGAAATG+TGG 0.567073 2.4:+34715264 MS.gene83227:CDS
TCAGAAGGAGGATAAGAAAG+AGG 0.581589 2.4:+34714861 MS.gene83227:CDS
GGAGCAGAAGCAGGACAAGA+GGG 0.589548 2.4:+34715387 MS.gene83227:CDS
TTGCTAACCGAAGAGAATGC+GGG 0.590108 2.4:+34715289 MS.gene83227:CDS
GTAGCAACTGATGAAACCTC+AGG 0.592839 2.4:-34714901 None:intergenic
TCGCGAACCAAACCGCTGAT+CGG 0.596673 2.4:-34715141 None:intergenic
AAGGAGAAAGCTGAGAGCAG+TGG 0.611507 2.4:+34714942 MS.gene83227:CDS
ACACTCTTCGGATACAGACG+TGG 0.614842 2.4:+34715051 MS.gene83227:CDS
AGGGTGAACTTATGTACATG+AGG 0.615478 2.4:+34715406 MS.gene83227:CDS
CAGCCAATGCACATGCAACA+AGG 0.617013 2.4:+34714923 MS.gene83227:CDS
AGAATGCGGGCAAAAGGAGT+GGG 0.620572 2.4:+34715302 MS.gene83227:CDS
GTGGGATATTCTCAAAGCTG+TGG 0.621077 2.4:+34715320 MS.gene83227:CDS
ACACGAGAACCAAGGCCGAA+AGG 0.624612 2.4:-34715021 None:intergenic
TTTGCTAACCGAAGAGAATG+CGG 0.625223 2.4:+34715288 MS.gene83227:CDS
GGTTGCTTGAAGAGCCTCAG+TGG 0.639061 2.4:+34715235 MS.gene83227:CDS
GAGCTTGCAACACCGATCAG+CGG 0.646768 2.4:+34715129 MS.gene83227:CDS
TGCTTGAAGAGCCTCAGTGG+AGG 0.649149 2.4:+34715238 MS.gene83227:CDS
CAGTGGAGGACATATTGCAA+TGG 0.652311 2.4:+34715252 MS.gene83227:CDS
AATTGCTCTGGAATGTGACA+AGG 0.655325 2.4:+34715185 MS.gene83227:CDS
CACTCTTCGGATACAGACGT+GGG 0.655753 2.4:+34715052 MS.gene83227:CDS
GGGTGAACTTATGTACATGA+GGG 0.663670 2.4:+34715407 MS.gene83227:CDS
TGGGTGCTGGTGTTATACCA+GGG 0.691210 2.4:+34715355 MS.gene83227:CDS
TTCCAACTACACGAGAACCA+AGG 0.713314 2.4:-34715029 None:intergenic
TTGCAATATGTCCTCCACTG+AGG 0.726059 2.4:-34715249 None:intergenic
ATGATGAATCCTGATAGCAA+TGG 0.740095 2.4:+34715477 MS.gene83227:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGTACATTTTGCATTTCAAA+AGG + chr2.4:34715077-34715096 MS.gene83227:CDS 25.0%
AGCAAATAAATACTAAGCTC+AGG - chr2.4:34715507-34715526 None:intergenic 30.0%
CAAAGTTTGAGAGAATTGTT+GGG + chr2.4:34715430-34715449 MS.gene83227:CDS 30.0%
! ACATTTTCATTGGACAAACA+AGG + chr2.4:34714786-34714805 MS.gene83227:CDS 30.0%
!! CTTCTAAGAGACATTTTCAT+TGG + chr2.4:34714776-34714795 MS.gene83227:CDS 30.0%
AAGCAGAGAAGAAAAGCTTA+AGG + chr2.4:34715214-34715233 MS.gene83227:CDS 35.0%
ATGATGAATCCTGATAGCAA+TGG + chr2.4:34715477-34715496 MS.gene83227:CDS 35.0%
CTCAATCAAAAAGGCTTCTT+GGG - chr2.4:34715112-34715131 None:intergenic 35.0%
GCAAAGTTTGAGAGAATTGT+TGG + chr2.4:34715429-34715448 MS.gene83227:CDS 35.0%
TATTGCAATGGCAAGAAATG+TGG + chr2.4:34715264-34715283 MS.gene83227:CDS 35.0%
TGTTGCAAGCTCAATCAAAA+AGG - chr2.4:34715121-34715140 None:intergenic 35.0%
TTTCATTGGACAAACAAGGT+TGG + chr2.4:34714790-34714809 MS.gene83227:CDS 35.0%
AAAAAGGCTTCTTGGGAAGT+TGG - chr2.4:34715105-34715124 None:intergenic 40.0%
AACAAGGTTGGAACTGAAGA+TGG + chr2.4:34714802-34714821 MS.gene83227:CDS 40.0%
AGGGTGAACTTATGTACATG+AGG + chr2.4:34715406-34715425 MS.gene83227:CDS 40.0%
GCTCAATCAAAAAGGCTTCT+TGG - chr2.4:34715113-34715132 None:intergenic 40.0%
GGGTGAACTTATGTACATGA+GGG + chr2.4:34715407-34715426 MS.gene83227:CDS 40.0%
GTTATACCAGGGACTGATAA+TGG + chr2.4:34715366-34715385 MS.gene83227:CDS 40.0%
TCAGAAGGAGGATAAGAAAG+AGG + chr2.4:34714861-34714880 MS.gene83227:CDS 40.0%
TTTGCTAACCGAAGAGAATG+CGG + chr2.4:34715288-34715307 MS.gene83227:CDS 40.0%
! GTTTTCGACTCTCATTCAGA+AGG + chr2.4:34714846-34714865 MS.gene83227:CDS 40.0%
!! AATTGCTCTGGAATGTGACA+AGG + chr2.4:34715185-34715204 MS.gene83227:CDS 40.0%
ACACCAGCACCCATTGAAAT+CGG - chr2.4:34715348-34715367 None:intergenic 45.0%
CAGTGGAGGACATATTGCAA+TGG + chr2.4:34715252-34715271 MS.gene83227:CDS 45.0%
CGTGTAGTTGGAACACTCTT+CGG + chr2.4:34715039-34715058 MS.gene83227:CDS 45.0%
GGATAAGAAAGAGGCTGACA+AGG + chr2.4:34714870-34714889 MS.gene83227:CDS 45.0%
GTAGCAACTGATGAAACCTC+AGG - chr2.4:34714904-34714923 None:intergenic 45.0%
GTGGGATATTCTCAAAGCTG+TGG + chr2.4:34715320-34715339 MS.gene83227:CDS 45.0%
TCAGGAACACCATTGCTATC+AGG - chr2.4:34715489-34715508 None:intergenic 45.0%
TCTCCTTGTTGCATGTGCAT+TGG - chr2.4:34714929-34714948 None:intergenic 45.0%
TGACAAGGTTGTTGATCCTG+AGG + chr2.4:34714885-34714904 MS.gene83227:CDS 45.0%
TGGGTCAGTAAGAATTGCTC+TGG + chr2.4:34715173-34715192 MS.gene83227:CDS 45.0%
TTCCAACTACACGAGAACCA+AGG - chr2.4:34715032-34715051 None:intergenic 45.0%
TTCGACTCTCATTCAGAAGG+AGG + chr2.4:34714849-34714868 MS.gene83227:CDS 45.0%
TTGCAATATGTCCTCCACTG+AGG - chr2.4:34715252-34715271 None:intergenic 45.0%
TTGCTAACCGAAGAGAATGC+GGG + chr2.4:34715289-34715308 MS.gene83227:CDS 45.0%
!! ACTGATAATGGAGCAGAAGC+AGG + chr2.4:34715378-34715397 MS.gene83227:CDS 45.0%
AAGGAGAAAGCTGAGAGCAG+TGG + chr2.4:34714942-34714961 MS.gene83227:CDS 50.0%
ACACTCTTCGGATACAGACG+TGG + chr2.4:34715051-34715070 MS.gene83227:CDS 50.0%
AGAATGCGGGCAAAAGGAGT+GGG + chr2.4:34715302-34715321 MS.gene83227:CDS 50.0%
CACTCTTCGGATACAGACGT+GGG + chr2.4:34715052-34715071 MS.gene83227:CDS 50.0%
CAGCCAATGCACATGCAACA+AGG + chr2.4:34714923-34714942 MS.gene83227:CDS 50.0%
TCTGCTCCATTATCAGTCCC+TGG - chr2.4:34715375-34715394 None:intergenic 50.0%
TGAGAGCAGTGGCGATTTCA+AGG + chr2.4:34714953-34714972 MS.gene83227:CDS 50.0%
TGGTTCGCGAAATGGCATCT+GGG + chr2.4:34715154-34715173 MS.gene83227:CDS 50.0%
! AGCTGTGGAGCCGATTTCAA+TGG + chr2.4:34715335-34715354 MS.gene83227:CDS 50.0%
! CCTTTTGCCCGCATTCTCTT+CGG - chr2.4:34715299-34715318 None:intergenic 50.0%
! GCTGTGGAGCCGATTTCAAT+GGG + chr2.4:34715336-34715355 MS.gene83227:CDS 50.0%
! TTGGTTCGCGAAATGGCATC+TGG + chr2.4:34715153-34715172 MS.gene83227:CDS 50.0%
!! ATGGGTGCTGGTGTTATACC+AGG + chr2.4:34715354-34715373 MS.gene83227:CDS 50.0%
!! TGGGTGCTGGTGTTATACCA+GGG + chr2.4:34715355-34715374 MS.gene83227:CDS 50.0%
AACCGGTCGAACACGCCTTT+CGG + chr2.4:34715006-34715025 MS.gene83227:CDS 55.0%
ACACGAGAACCAAGGCCGAA+AGG - chr2.4:34715024-34715043 None:intergenic 55.0%
CCGAAGAGAATGCGGGCAAA+AGG + chr2.4:34715296-34715315 MS.gene83227:CDS 55.0%
GAGAATGCGGGCAAAAGGAG+TGG + chr2.4:34715301-34715320 MS.gene83227:CDS 55.0%
GAGCTTGCAACACCGATCAG+CGG + chr2.4:34715129-34715148 MS.gene83227:CDS 55.0%
GGAGCAGAAGCAGGACAAGA+GGG + chr2.4:34715387-34715406 MS.gene83227:CDS 55.0%
GGTTGCTTGAAGAGCCTCAG+TGG + chr2.4:34715235-34715254 MS.gene83227:CDS 55.0%
TCACCGTGTTCGGCAAGAAC+CGG + chr2.4:34714989-34715008 MS.gene83227:CDS 55.0%
TCGCGAACCAAACCGCTGAT+CGG - chr2.4:34715144-34715163 None:intergenic 55.0%
TGCAACACCGATCAGCGGTT+TGG + chr2.4:34715134-34715153 MS.gene83227:CDS 55.0%
TGCTTGAAGAGCCTCAGTGG+AGG + chr2.4:34715238-34715257 MS.gene83227:CDS 55.0%
TGGAGCAGAAGCAGGACAAG+AGG + chr2.4:34715386-34715405 MS.gene83227:CDS 55.0%
! GAGCCGATTTCAATGGGTGC+TGG + chr2.4:34715342-34715361 MS.gene83227:CDS 55.0%
! GGCCTTGGTTCTCGTGTAGT+TGG + chr2.4:34715027-34715046 MS.gene83227:CDS 55.0%
!! CAGCGGTTTGGTTCGCGAAA+TGG + chr2.4:34715146-34715165 MS.gene83227:CDS 55.0%
CGCTCAGCTCTCACCGTGTT+CGG + chr2.4:34714979-34714998 MS.gene83227:CDS 60.0%
TCGAACACGCCTTTCGGCCT+TGG + chr2.4:34715012-34715031 MS.gene83227:CDS 60.0%
! CGACCGGTTCTTGCCGAACA+CGG - chr2.4:34714995-34715014 None:intergenic 60.0%
! GGCCGAAAGGCGTGTTCGAC+CGG - chr2.4:34715011-34715030 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 34714754 34715536 34714754 ID=MS.gene83227
chr2.4 mRNA 34714754 34715536 34714754 ID=MS.gene83227.t1;Parent=MS.gene83227
chr2.4 exon 34714754 34715536 34714754 ID=MS.gene83227.t1.exon1;Parent=MS.gene83227.t1
chr2.4 CDS 34714754 34715536 34714754 ID=cds.MS.gene83227.t1;Parent=MS.gene83227.t1
Gene Sequence

>MS.gene83227

ATGGCTAGAAGCTCAAACATGTCTTCTAAGAGACATTTTCATTGGACAAACAAGGTTGGAACTGAAGATGGCGAAGTTCACACTTCAGAATCGTTTTCGACTCTCATTCAGAAGGAGGATAAGAAAGAGGCTGACAAGGTTGTTGATCCTGAGGTTTCATCAGTTGCTACAGCCAATGCACATGCAACAAGGAGAAAGCTGAGAGCAGTGGCGATTTCAAGGCTTCGCTCAGCTCTCACCGTGTTCGGCAAGAACCGGTCGAACACGCCTTTCGGCCTTGGTTCTCGTGTAGTTGGAACACTCTTCGGATACAGACGTGGGCATGTACATTTTGCATTTCAAAAGGATCCAACTTCCCAAGAAGCCTTTTTGATTGAGCTTGCAACACCGATCAGCGGTTTGGTTCGCGAAATGGCATCTGGGTCAGTAAGAATTGCTCTGGAATGTGACAAGGAGAAAGAAGCAGAGAAGAAAAGCTTAAGGTTGCTTGAAGAGCCTCAGTGGAGGACATATTGCAATGGCAAGAAATGTGGATTTGCTAACCGAAGAGAATGCGGGCAAAAGGAGTGGGATATTCTCAAAGCTGTGGAGCCGATTTCAATGGGTGCTGGTGTTATACCAGGGACTGATAATGGAGCAGAAGCAGGACAAGAGGGTGAACTTATGTACATGAGGGCAAAGTTTGAGAGAATTGTTGGGTCTAGAGACTCTGAAGCTTTCTATATGATGAATCCTGATAGCAATGGTGTTCCTGAGCTTAGTATTTATTTGCTTAGAGTCTAG

Protein sequence

>MS.gene83227.t1

MARSSNMSSKRHFHWTNKVGTEDGEVHTSESFSTLIQKEDKKEADKVVDPEVSSVATANAHATRRKLRAVAISRLRSALTVFGKNRSNTPFGLGSRVVGTLFGYRRGHVHFAFQKDPTSQEAFLIELATPISGLVREMASGSVRIALECDKEKEAEKKSLRLLEEPQWRTYCNGKKCGFANRRECGQKEWDILKAVEPISMGAGVIPGTDNGAEAGQEGELMYMRAKFERIVGSRDSEAFYMMNPDSNGVPELSIYLLRV