AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene00325

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00325.t1 MTR_2g437090 93.567 171 11 0 69 239 1 171 1.67e-115 327
MS.gene00325.t1 MTR_2g437020 63.025 238 87 1 1 238 146 382 1.09e-103 305
MS.gene00325.t1 MTR_2g437030 61.181 237 90 1 1 237 233 467 5.35e-99 296
MS.gene00325.t1 MTR_2g436440 61.277 235 89 1 1 235 153 385 7.95e-99 293
MS.gene00325.t1 MTR_2g437060 61.441 236 89 1 1 236 162 395 5.00e-98 291
MS.gene00325.t1 MTR_2g437080 58.824 238 96 1 1 238 147 382 6.94e-98 290
MS.gene00325.t1 MTR_2g436400 60.435 230 89 1 1 230 154 381 4.39e-93 278
MS.gene00325.t1 MTR_2g437040 55.932 236 102 1 1 236 147 380 2.73e-88 266
MS.gene00325.t1 MTR_4g119550 49.362 235 117 1 1 235 157 389 2.81e-78 241
MS.gene00325.t1 MTR_2g437120 52.743 237 106 3 1 234 158 391 4.89e-77 238
MS.gene00325.t1 MTR_2g437170 51.240 242 113 2 1 239 164 403 1.07e-76 237
MS.gene00325.t1 MTR_2g438010 49.587 242 117 2 1 239 177 416 4.65e-76 236
MS.gene00325.t1 MTR_2g437150 50.000 242 116 2 1 239 164 403 1.36e-75 234
MS.gene00325.t1 MTR_2g437960 50.413 242 115 3 1 239 160 399 3.39e-74 231
MS.gene00325.t1 MTR_2g437960 50.413 242 115 3 1 239 160 399 7.32e-74 231
MS.gene00325.t1 MTR_2g437200 51.528 229 106 2 1 226 172 398 1.82e-73 229
MS.gene00325.t1 MTR_2g438020 50.633 237 108 3 1 232 211 443 2.96e-73 231
MS.gene00325.t1 MTR_2g437240 50.213 235 112 2 1 232 172 404 3.12e-73 229
MS.gene00325.t1 MTR_2g437100 53.275 229 102 2 1 226 169 395 1.69e-72 226
MS.gene00325.t1 MTR_2g437130 47.699 239 123 1 1 239 148 384 1.78e-71 223
MS.gene00325.t1 MTR_2g437180 48.347 242 118 4 1 239 156 393 3.91e-71 223
MS.gene00325.t1 MTR_2g437160 48.133 241 121 2 1 239 170 408 3.65e-70 221
MS.gene00325.t1 MTR_2g437990 47.718 241 122 3 1 239 157 395 1.19e-69 220
MS.gene00325.t1 MTR_2g076320 46.694 242 124 3 1 239 157 396 1.87e-69 218
MS.gene00325.t1 MTR_2g437940 54.187 203 91 1 37 239 167 367 1.58e-67 213
MS.gene00325.t1 MTR_2g437260 42.609 230 132 0 1 230 141 370 8.18e-67 211
MS.gene00325.t1 MTR_2g437160 50.463 216 101 3 28 239 104 317 1.68e-65 206
MS.gene00325.t1 MTR_2g436460 43.913 230 126 2 1 229 152 379 1.20e-60 195
MS.gene00325.t1 MTR_4g119580 43.946 223 123 1 1 223 149 369 1.01e-57 187
MS.gene00325.t1 MTR_4g120380 41.518 224 129 1 1 224 149 370 9.06e-54 177
MS.gene00325.t1 MTR_2g019810 43.363 226 126 2 1 226 136 359 1.61e-51 171
MS.gene00325.t1 MTR_2g019840 42.174 230 131 2 1 230 148 375 3.29e-51 171
MS.gene00325.t1 MTR_4g120380 42.157 204 116 1 1 204 149 350 6.47e-48 163
MS.gene00325.t1 MTR_4g120380 36.667 120 71 2 72 191 302 416 2.23e-12 66.2
MS.gene00325.t1 MTR_4g119570 35.268 224 110 2 1 224 41 229 8.73e-38 132
MS.gene00325.t1 MTR_3g450500 26.957 230 164 1 1 226 143 372 1.30e-27 108
MS.gene00325.t1 MTR_4g007490 28.509 228 159 2 1 224 141 368 8.17e-26 103
MS.gene00325.t1 MTR_2g436380 65.000 60 21 0 69 128 1 60 2.81e-20 87.4
MS.gene00325.t1 MTR_3g085240 40.449 89 36 1 128 216 176 247 1.95e-13 68.2
MS.gene00325.t1 MTR_8g080990 25.543 184 137 0 37 220 185 368 1.94e-11 63.2
MS.gene00325.t1 MTR_4g119615 54.000 50 23 0 168 217 26 75 2.15e-11 58.9
MS.gene00325.t1 MTR_2g019830 52.174 69 32 1 161 229 135 202 4.60e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00325.t1 AT5G07900 31.718 227 151 2 1 223 173 399 1.36e-32 122
MS.gene00325.t1 AT1G21150 24.779 226 164 3 1 221 124 348 4.27e-19 85.1
MS.gene00325.t1 AT1G21150 24.779 226 164 3 1 221 160 384 4.87e-19 85.5
MS.gene00325.t1 AT1G21150 24.779 226 164 3 1 221 224 448 8.06e-19 85.1
MS.gene00325.t1 AT5G64950 28.125 224 152 2 1 215 143 366 2.19e-15 75.1
MS.gene00325.t1 AT1G61980 25.248 202 111 5 60 223 216 415 1.95e-12 66.6
MS.gene00325.t1 AT1G61980 25.248 202 111 5 60 223 216 415 1.95e-12 66.6
MS.gene00325.t1 AT1G61980 25.248 202 111 5 60 223 216 415 1.95e-12 66.6

Find 49 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAACAACTTGATGTTATT+TGG 0.104270 2.1:+56251965 None:intergenic
CACTAAATTTAATTTATTAA+TGG 0.141687 2.1:+56251667 None:intergenic
GAAATTGCTGGAGGAATTAA+AGG 0.197979 2.1:-56251858 MS.gene00325:CDS
GCTGGAGGAATTAAAGGTTT+TGG 0.234696 2.1:-56251852 MS.gene00325:CDS
AACTTCTCAGGCACTATAAA+TGG 0.258902 2.1:+56251482 None:intergenic
GTTCACAATCGAAATTTCTT+TGG 0.274752 2.1:-56252001 MS.gene00325:CDS
TTGGGTTAATGAGTTGGGTT+GGG 0.307235 2.1:-56251636 MS.gene00325:CDS
AGACCAACCCCATTTCTTAA+AGG 0.312139 2.1:+56251742 None:intergenic
CTTTGGCAATTAGTGCTAGA+TGG 0.328181 2.1:+56251804 None:intergenic
AGTTGACACCTTTAAGAAAT+GGG 0.372153 2.1:-56251750 MS.gene00325:CDS
AAGTTGACACCTTTAAGAAA+TGG 0.378023 2.1:-56251751 MS.gene00325:CDS
AGCAATTTCAGCATGTCTCC+TGG 0.410103 2.1:+56251872 None:intergenic
AGGAGACATGCTGAAATTGC+TGG 0.412023 2.1:-56251870 MS.gene00325:CDS
TTCGCAGACCTTTCTTTAGC+AGG 0.413931 2.1:+56251528 None:intergenic
TTTAGCAGGAATTGCAGAAC+TGG 0.418247 2.1:+56251542 None:intergenic
CTGCACAAGCAAGGGTGTCC+CGG 0.429389 2.1:+56252023 None:intergenic
AATGGTACCAACCTATGAAT+TGG 0.430323 2.1:-56252068 MS.gene00325:CDS
TGCACAAGCAAGGGTGTCCC+GGG 0.430444 2.1:+56252024 None:intergenic
GAATGTAGACGCCAATTCAT+AGG 0.435511 2.1:+56252057 None:intergenic
TGTCAACTTTATCTTTCCAT+AGG 0.441802 2.1:+56251765 None:intergenic
ATCAAGTTGTTGATCAAGAA+TGG 0.442244 2.1:-56251956 MS.gene00325:CDS
AATTGCAGAACTGGGGCCCC+TGG 0.455387 2.1:+56251551 None:intergenic
TTTGGGTTAATGAGTTGGGT+TGG 0.469434 2.1:-56251637 MS.gene00325:CDS
TTAGAAGATTGCTTCGTAGC+AGG 0.479908 2.1:-56251916 MS.gene00325:CDS
CCTGGACCTGAATAGAATAT+CGG 0.484798 2.1:+56251890 None:intergenic
AGGAGTCCGATATTCTATTC+AGG 0.485761 2.1:-56251896 MS.gene00325:CDS
TAAAGAAAGGTCTGCGAAAG+AGG 0.502770 2.1:-56251523 MS.gene00325:CDS
TTATCAAGAAACAACTTCTC+AGG 0.508607 2.1:+56251470 None:intergenic
GTCAACTTTATCTTTCCATA+GGG 0.508818 2.1:+56251766 None:intergenic
CCGATATTCTATTCAGGTCC+AGG 0.510519 2.1:-56251890 MS.gene00325:CDS
CAGAACTGGGGCCCCTGGAA+TGG 0.513184 2.1:+56251556 None:intergenic
TACATTCTTGAAATCTCCCC+GGG 0.515560 2.1:-56252041 MS.gene00325:CDS
CAAGTATAAACAAAACCCTA+TGG 0.520595 2.1:-56251781 MS.gene00325:CDS
TTAGCAGGAATTGCAGAACT+GGG 0.527314 2.1:+56251543 None:intergenic
CTGCAATTCCTGCTAAAGAA+AGG 0.540734 2.1:-56251536 MS.gene00325:CDS
GATTGTGAACTGCACAAGCA+AGG 0.555573 2.1:+56252014 None:intergenic
CTACATTCTTGAAATCTCCC+CGG 0.560606 2.1:-56252042 MS.gene00325:CDS
CAATCTTCTAATGTTTGAGT+CGG 0.570421 2.1:+56251928 None:intergenic
GATGTTATTTGGCACACGCG+TGG 0.582501 2.1:+56251976 None:intergenic
GTTGACACCTTTAAGAAATG+GGG 0.582694 2.1:-56251749 MS.gene00325:CDS
ATTGTGAACTGCACAAGCAA+GGG 0.590606 2.1:+56252015 None:intergenic
AAAGTGATGGATCTATAGCA+AGG 0.611721 2.1:+56251603 None:intergenic
ACACCTTTAAGAAATGGGGT+TGG 0.612652 2.1:-56251745 MS.gene00325:CDS
AAGTGATGGATCTATAGCAA+GGG 0.614469 2.1:+56251604 None:intergenic
GTAGACGCCAATTCATAGGT+TGG 0.614492 2.1:+56252061 None:intergenic
ATGGATACTAACATACACTC+AGG 0.661010 2.1:+56251686 None:intergenic
GCACAAGCAAGGGTGTCCCG+GGG 0.672396 2.1:+56252025 None:intergenic
TAGCAGGAATTGCAGAACTG+GGG 0.675872 2.1:+56251544 None:intergenic
AGACATGCTGAAATTGCTGG+AGG 0.684530 2.1:-56251867 MS.gene00325:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CACTAAATTTAATTTATTAA+TGG + chr2.1:56251773-56251792 None:intergenic 10.0%
!!! AAATTTAGTGATGAATTTTT+GGG - chr2.1:56251783-56251802 MS.gene00325:CDS 15.0%
!!! TAAATTTAGTGATGAATTTT+TGG - chr2.1:56251782-56251801 MS.gene00325:CDS 15.0%
! AAACTTATAGCAAAAAGTGA+TGG + chr2.1:56251850-56251869 None:intergenic 25.0%
! ATCAACAACTTGATGTTATT+TGG + chr2.1:56251475-56251494 None:intergenic 25.0%
! TTGCTATAAGTTTGGAAAAA+AGG - chr2.1:56251857-56251876 MS.gene00325:CDS 25.0%
!!! AATTTTTGGGTTAATGAGTT+GGG - chr2.1:56251796-56251815 MS.gene00325:CDS 25.0%
!!! ATCACTTTTTGCTATAAGTT+TGG - chr2.1:56251849-56251868 MS.gene00325:CDS 25.0%
!!! TTATTTTCGAAGCATTTAGA+AGG - chr2.1:56251725-56251744 MS.gene00325:CDS 25.0%
CAAGTATAAACAAAACCCTA+TGG - chr2.1:56251656-56251675 MS.gene00325:CDS 30.0%
CAATCTTCTAATGTTTGAGT+CGG + chr2.1:56251512-56251531 None:intergenic 30.0%
GTCAACTTTATCTTTCCATA+GGG + chr2.1:56251674-56251693 None:intergenic 30.0%
GTTCACAATCGAAATTTCTT+TGG - chr2.1:56251436-56251455 MS.gene00325:CDS 30.0%
TGTCAACTTTATCTTTCCAT+AGG + chr2.1:56251675-56251694 None:intergenic 30.0%
TTATCAAGAAACAACTTCTC+AGG + chr2.1:56251970-56251989 None:intergenic 30.0%
! AAGTTGACACCTTTAAGAAA+TGG - chr2.1:56251686-56251705 MS.gene00325:CDS 30.0%
! AGTTGACACCTTTAAGAAAT+GGG - chr2.1:56251687-56251706 MS.gene00325:CDS 30.0%
! ATCAAGTTGTTGATCAAGAA+TGG - chr2.1:56251481-56251500 MS.gene00325:CDS 30.0%
!! AGATGGAAAGATGTTTTTGA+AGG + chr2.1:56251619-56251638 None:intergenic 30.0%
!!! GAATTTTTGGGTTAATGAGT+TGG - chr2.1:56251795-56251814 MS.gene00325:CDS 30.0%
!!! GGTTTTGTTTATACTTGCTT+TGG + chr2.1:56251653-56251672 None:intergenic 30.0%
AACTTCTCAGGCACTATAAA+TGG + chr2.1:56251958-56251977 None:intergenic 35.0%
ATGGATACTAACATACACTC+AGG + chr2.1:56251754-56251773 None:intergenic 35.0%
GAAATTGCTGGAGGAATTAA+AGG - chr2.1:56251579-56251598 MS.gene00325:CDS 35.0%
! CTGGAGGAATTAAAGGTTTT+GGG - chr2.1:56251586-56251605 MS.gene00325:CDS 35.0%
! GTTGACACCTTTAAGAAATG+GGG - chr2.1:56251688-56251707 MS.gene00325:CDS 35.0%
! TTTTGTCTATGGTGTATGCA+AGG + chr2.1:56252056-56252075 None:intergenic 35.0%
!! AAAGTGATGGATCTATAGCA+AGG + chr2.1:56251837-56251856 None:intergenic 35.0%
!! AAGTGATGGATCTATAGCAA+GGG + chr2.1:56251836-56251855 None:intergenic 35.0%
!! TTTTCGAAGCATTTAGAAGG+CGG - chr2.1:56251728-56251747 MS.gene00325:CDS 35.0%
AGACCAACCCCATTTCTTAA+AGG + chr2.1:56251698-56251717 None:intergenic 40.0%
AGGAGTCCGATATTCTATTC+AGG - chr2.1:56251541-56251560 MS.gene00325:CDS 40.0%
ATTGTGAACTGCACAAGCAA+GGG + chr2.1:56251425-56251444 None:intergenic 40.0%
CCTGGACCTGAATAGAATAT+CGG + chr2.1:56251550-56251569 None:intergenic 40.0%
CTACATTCTTGAAATCTCCC+CGG - chr2.1:56251395-56251414 MS.gene00325:CDS 40.0%
CTGCAATTCCTGCTAAAGAA+AGG - chr2.1:56251901-56251920 MS.gene00325:CDS 40.0%
CTTTGGCAATTAGTGCTAGA+TGG + chr2.1:56251636-56251655 None:intergenic 40.0%
GAATGTAGACGCCAATTCAT+AGG + chr2.1:56251383-56251402 None:intergenic 40.0%
TAAAGAAAGGTCTGCGAAAG+AGG - chr2.1:56251914-56251933 MS.gene00325:CDS 40.0%
TACATTCTTGAAATCTCCCC+GGG - chr2.1:56251396-56251415 MS.gene00325:CDS 40.0%
TGGAAAAAAGGACCATTCCA+GGG - chr2.1:56251869-56251888 MS.gene00325:CDS 40.0%
TTAGAAGATTGCTTCGTAGC+AGG - chr2.1:56251521-56251540 MS.gene00325:CDS 40.0%
TTAGCAGGAATTGCAGAACT+GGG + chr2.1:56251897-56251916 None:intergenic 40.0%
TTGGAAAAAAGGACCATTCC+AGG - chr2.1:56251868-56251887 MS.gene00325:CDS 40.0%
TTTAGCAGGAATTGCAGAAC+TGG + chr2.1:56251898-56251917 None:intergenic 40.0%
! ACACCTTTAAGAAATGGGGT+TGG - chr2.1:56251692-56251711 MS.gene00325:CDS 40.0%
! GCTGGAGGAATTAAAGGTTT+TGG - chr2.1:56251585-56251604 MS.gene00325:CDS 40.0%
! TTGGGTTAATGAGTTGGGTT+GGG - chr2.1:56251801-56251820 MS.gene00325:CDS 40.0%
! TTTGGGTTAATGAGTTGGGT+TGG - chr2.1:56251800-56251819 MS.gene00325:CDS 40.0%
AGACATGCTGAAATTGCTGG+AGG - chr2.1:56251570-56251589 MS.gene00325:CDS 45.0%
AGCAATTTCAGCATGTCTCC+TGG + chr2.1:56251568-56251587 None:intergenic 45.0%
AGGAGACATGCTGAAATTGC+TGG - chr2.1:56251567-56251586 MS.gene00325:CDS 45.0%
CCGATATTCTATTCAGGTCC+AGG - chr2.1:56251547-56251566 MS.gene00325:CDS 45.0%
GATTGTGAACTGCACAAGCA+AGG + chr2.1:56251426-56251445 None:intergenic 45.0%
GGAAAAAAGGACCATTCCAG+GGG - chr2.1:56251870-56251889 MS.gene00325:CDS 45.0%
GTAGACGCCAATTCATAGGT+TGG + chr2.1:56251379-56251398 None:intergenic 45.0%
TAGCAGGAATTGCAGAACTG+GGG + chr2.1:56251896-56251915 None:intergenic 45.0%
TTCGCAGACCTTTCTTTAGC+AGG + chr2.1:56251912-56251931 None:intergenic 45.0%
!! TGGCGTGCAAGTTTTGTCTA+TGG + chr2.1:56252067-56252086 None:intergenic 45.0%
! GATGTTATTTGGCACACGCG+TGG + chr2.1:56251464-56251483 None:intergenic 50.0%
AATTGCAGAACTGGGGCCCC+TGG + chr2.1:56251889-56251908 None:intergenic 60.0%
!! CTGCACAAGCAAGGGTGTCC+CGG + chr2.1:56251417-56251436 None:intergenic 60.0%
!! TGCACAAGCAAGGGTGTCCC+GGG + chr2.1:56251416-56251435 None:intergenic 60.0%
CAGAACTGGGGCCCCTGGAA+TGG + chr2.1:56251884-56251903 None:intergenic 65.0%
!! GCACAAGCAAGGGTGTCCCG+GGG + chr2.1:56251415-56251434 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 56251370 56252089 56251370 ID=MS.gene00325
chr2.1 mRNA 56251370 56252089 56251370 ID=MS.gene00325.t1;Parent=MS.gene00325
chr2.1 exon 56251370 56252089 56251370 ID=MS.gene00325.t1.exon1;Parent=MS.gene00325.t1
chr2.1 CDS 56251370 56252089 56251370 ID=cds.MS.gene00325.t1;Parent=MS.gene00325.t1
Gene Sequence

>MS.gene00325

ATGGTACCAACCTATGAATTGGCGTCTACATTCTTGAAATCTCCCCGGGACACCCTTGCTTGTGCAGTTCACAATCGAAATTTCTTTGGAGCCACGCGTGTGCCAAATAACATCAAGTTGTTGATCAAGAATGGAGTGTCCGACTCAAACATTAGAAGATTGCTTCGTAGCAGGAGTCCGATATTCTATTCAGGTCCAGGAGACATGCTGAAATTGCTGGAGGAATTAAAGGTTTTGGGTTTTAATCCTTCAAAAACATCTTTCCATCTAGCACTAATTGCCAAAGCAAGTATAAACAAAACCCTATGGAAAGATAAAGTTGACACCTTTAAGAAATGGGGTTGGTCTGAACAAGTTATTTTCGAAGCATTTAGAAGGCGGCCTGAGTGTATGTTAGTATCCATTAATAAATTAAATTTAGTGATGAATTTTTGGGTTAATGAGTTGGGTTGGGATGCTCTTGCCCTTGCTATAGATCCATCACTTTTTGCTATAAGTTTGGAAAAAAGGACCATTCCAGGGGCCCCAGTTCTGCAATTCCTGCTAAAGAAAGGTCTGCGAAAGAGGACTGCAAGCTTAACTTCTCCATTTATAGTGCCTGAGAAGTTGTTTCTTGATAAGTTTATAAAACGTTTTGAGAACGAGTCTTCTTATCTGTTAAAACTCTATGAAGAAAAACTCAACCTTGCATACACCATAGACAAAACTTGCACGCCATGA
Protein sequence

>MS.gene00325.t1

MVPTYELASTFLKSPRDTLACAVHNRNFFGATRVPNNIKLLIKNGVSDSNIRRLLRSRSPIFYSGPGDMLKLLEELKVLGFNPSKTSFHLALIAKASINKTLWKDKVDTFKKWGWSEQVIFEAFRRRPECMLVSINKLNLVMNFWVNELGWDALALAIDPSLFAISLEKRTIPGAPVLQFLLKKGLRKRTASLTSPFIVPEKLFLDKFIKRFENESSYLLKLYEEKLNLAYTIDKTCTP