AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene002753

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene002753.t1 MTR_2g019810 80.702 171 33 0 1 171 196 366 1.57e-99 291
MS.gene002753.t1 MTR_2g019840 73.373 169 45 0 1 169 208 376 7.02e-86 257
MS.gene002753.t1 MTR_2g436400 52.564 156 72 2 11 164 222 377 8.36e-50 164
MS.gene002753.t1 MTR_2g436460 47.674 172 82 4 1 164 205 376 5.49e-46 154
MS.gene002753.t1 MTR_2g437080 51.923 156 73 2 11 164 215 370 5.54e-46 154
MS.gene002753.t1 MTR_2g437960 47.753 178 86 3 1 171 216 393 9.78e-46 154
MS.gene002753.t1 MTR_2g437960 47.753 178 86 3 1 171 216 393 1.29e-45 155
MS.gene002753.t1 MTR_2g437030 51.282 156 74 2 11 164 301 456 2.17e-45 155
MS.gene002753.t1 MTR_4g119550 48.718 156 78 2 11 164 225 380 4.09e-44 150
MS.gene002753.t1 MTR_2g437090 50.000 156 76 2 11 164 3 158 4.31e-44 144
MS.gene002753.t1 MTR_2g437240 46.784 171 84 3 1 164 228 398 1.74e-43 149
MS.gene002753.t1 MTR_2g437060 50.000 156 76 2 11 164 230 385 1.94e-43 148
MS.gene002753.t1 MTR_2g437020 51.923 156 72 3 11 164 216 370 2.27e-42 145
MS.gene002753.t1 MTR_2g437040 48.366 153 77 2 13 163 217 369 3.98e-42 144
MS.gene002753.t1 MTR_2g437120 50.323 155 76 1 11 164 229 383 5.30e-42 145
MS.gene002753.t1 MTR_2g436440 48.701 154 77 2 13 164 223 376 5.89e-42 144
MS.gene002753.t1 MTR_2g437160 48.684 152 76 2 15 164 153 304 2.26e-41 141
MS.gene002753.t1 MTR_2g437150 46.471 170 84 3 1 163 220 389 2.73e-41 143
MS.gene002753.t1 MTR_2g438020 47.368 171 83 3 1 164 267 437 3.17e-41 144
MS.gene002753.t1 MTR_2g437940 46.199 171 85 3 1 164 184 354 3.86e-41 142
MS.gene002753.t1 MTR_2g438010 44.444 171 88 3 1 164 233 403 4.28e-41 143
MS.gene002753.t1 MTR_2g437160 48.684 152 76 2 15 164 244 395 1.18e-40 141
MS.gene002753.t1 MTR_2g437260 45.349 172 85 4 1 163 194 365 1.46e-40 140
MS.gene002753.t1 MTR_2g437200 46.784 171 84 3 1 164 228 398 1.83e-40 140
MS.gene002753.t1 MTR_2g437170 46.199 171 85 3 1 164 220 390 1.86e-40 141
MS.gene002753.t1 MTR_2g437100 45.665 173 87 3 1 166 225 397 7.22e-40 139
MS.gene002753.t1 MTR_4g119580 44.000 175 90 4 1 168 202 375 1.16e-38 135
MS.gene002753.t1 MTR_2g437180 46.199 171 83 4 1 164 212 380 1.24e-38 135
MS.gene002753.t1 MTR_2g437990 45.513 156 83 2 11 164 227 382 4.91e-38 135
MS.gene002753.t1 MTR_2g076320 44.872 156 84 2 11 164 228 383 1.11e-37 133
MS.gene002753.t1 MTR_2g437130 40.449 178 99 3 1 171 201 378 3.48e-37 132
MS.gene002753.t1 MTR_4g120380 42.604 169 90 3 1 162 202 370 8.49e-37 130
MS.gene002753.t1 MTR_3g450500 37.736 159 95 3 9 164 215 372 1.90e-27 105
MS.gene002753.t1 MTR_4g120380 39.597 149 83 3 1 142 202 350 3.29e-27 105
MS.gene002753.t1 MTR_4g007490 34.356 163 105 2 5 165 209 371 4.14e-27 105
MS.gene002753.t1 MTR_2g019830 70.149 67 20 0 101 167 136 202 1.18e-22 90.1
MS.gene002753.t1 MTR_4g119570 35.503 169 69 4 1 162 94 229 1.36e-22 90.5
MS.gene002753.t1 MTR_8g080990 32.886 149 96 3 13 158 221 368 4.12e-15 72.0
MS.gene002753.t1 MTR_8g081000 29.139 151 103 3 15 162 236 385 4.13e-13 66.6
MS.gene002753.t1 MTR_8g081000 29.139 151 103 3 15 162 236 385 4.15e-13 66.2
MS.gene002753.t1 MTR_8g081000 29.139 151 103 3 15 162 236 385 4.47e-13 66.2
MS.gene002753.t1 MTR_8g012210 23.164 177 121 6 1 165 178 351 8.20e-13 65.5
MS.gene002753.t1 MTR_3g085240 34.444 90 43 1 67 156 176 249 1.15e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene002753.t1 AT5G07900 40.385 156 90 2 9 161 244 399 5.15e-34 124
MS.gene002753.t1 AT1G21150 32.500 160 105 2 9 165 195 354 3.63e-23 94.4
MS.gene002753.t1 AT1G21150 32.500 160 105 2 9 165 231 390 4.71e-23 94.4
MS.gene002753.t1 AT1G21150 32.500 160 105 2 9 165 295 454 8.69e-23 94.0
MS.gene002753.t1 AT1G62010 26.768 198 103 6 9 165 207 403 3.02e-15 72.8
MS.gene002753.t1 AT1G61980 27.692 195 97 7 9 161 223 415 7.56e-14 68.6
MS.gene002753.t1 AT1G61980 27.692 195 97 7 9 161 223 415 7.56e-14 68.6
MS.gene002753.t1 AT1G61980 27.692 195 97 7 9 161 223 415 7.56e-14 68.6
MS.gene002753.t1 AT1G61960 30.000 120 80 1 46 161 332 451 3.35e-13 67.0
MS.gene002753.t1 AT1G61990 26.289 194 101 6 9 161 216 408 5.07e-13 66.2
MS.gene002753.t1 AT1G61990 26.289 194 101 6 9 161 216 408 5.07e-13 66.2
MS.gene002753.t1 AT1G62110 29.231 130 85 2 46 168 333 462 6.77e-13 65.9
MS.gene002753.t1 AT1G79220 32.639 144 93 2 27 166 238 381 8.02e-12 62.8
MS.gene002753.t1 AT5G64950 29.609 179 106 5 1 162 201 376 1.03e-11 62.4
MS.gene002753.t1 AT1G61970 24.742 194 104 5 9 161 223 415 2.96e-11 61.2
MS.gene002753.t1 AT1G61970 24.742 194 104 5 9 161 223 415 2.96e-11 61.2
MS.gene002753.t1 AT1G61970 24.742 194 104 5 9 161 223 415 2.96e-11 61.2
MS.gene002753.t1 AT1G61970 24.742 194 104 5 9 161 223 415 2.96e-11 61.2
MS.gene002753.t1 AT1G61970 24.742 194 104 5 9 161 223 415 2.96e-11 61.2
MS.gene002753.t1 AT1G61970 24.742 194 104 5 9 161 223 415 2.96e-11 61.2
MS.gene002753.t1 AT1G61970 24.742 194 104 5 9 161 223 415 2.96e-11 61.2
MS.gene002753.t1 AT1G62120 25.758 198 105 7 9 165 229 425 3.79e-11 60.8
MS.gene002753.t1 AT3G46950 24.242 231 100 5 9 165 219 448 4.34e-11 60.8
MS.gene002753.t1 AT5G23930 27.731 119 85 1 44 161 327 445 9.64e-11 59.7

Find 30 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCCTTTCCCATACGGATTT+TGG 0.131006 2.1:+67400416 None:intergenic
CATAAGAAGTATTGGATATT+TGG 0.165459 2.1:+67400241 None:intergenic
GATGCTTCAACTTTCAAATA+AGG 0.222209 2.1:-67400032 None:intergenic
AATACTTCTTATGCTGAGTT+TGG 0.261332 2.1:-67400231 MS.gene002753:CDS
TCAATCCAAAGGTTTGATTA+AGG 0.262442 2.1:-67400168 MS.gene002753:CDS
AGTATTTGAGAAGGCAGTTT+TGG 0.367653 2.1:-67400507 MS.gene002753:CDS
GATTAATGCGTATAAGAAAT+GGG 0.369032 2.1:-67400393 MS.gene002753:CDS
AGATTAATGCGTATAAGAAA+TGG 0.381339 2.1:-67400394 MS.gene002753:CDS
AGCATCCTTAATCAAACCTT+TGG 0.408692 2.1:+67400163 None:intergenic
AAACTCAGCATAAGAAGTAT+TGG 0.453268 2.1:+67400233 None:intergenic
TCTTAGCATGCAGCGCGATA+AGG 0.457183 2.1:+67400444 None:intergenic
TTGAAATTTCTTCAATCCAA+AGG 0.481678 2.1:-67400179 MS.gene002753:CDS
CAGAGACTTTGAAAGGTGTA+GGG 0.502615 2.1:+67400135 None:intergenic
ATTAATCTTCCTTTCCCATA+CGG 0.515016 2.1:+67400409 None:intergenic
GTCCAAAATCCGTATGGGAA+AGG 0.543559 2.1:-67400418 MS.gene002753:CDS
ACTGCCTTCTCAAATACTGC+AGG 0.547454 2.1:+67400512 None:intergenic
AGATTAGTCCAAAATCCGTA+TGG 0.549136 2.1:-67400424 MS.gene002753:CDS
GAAGTATCCATGGTGTATGT+TGG 0.562557 2.1:-67400336 MS.gene002753:CDS
ATGGTGTATGTTGGCATCTG+TGG 0.563796 2.1:-67400327 MS.gene002753:CDS
TCAGAGACTTTGAAAGGTGT+AGG 0.564549 2.1:+67400134 None:intergenic
AATTTCAACGCAAAAGCCCT+AGG 0.586081 2.1:+67400194 None:intergenic
GATTAGTCCAAAATCCGTAT+GGG 0.594092 2.1:-67400423 MS.gene002753:CDS
ATTAATGCGTATAAGAAATG+GGG 0.599170 2.1:-67400392 MS.gene002753:CDS
GAAACCTGCAGTATTTGAGA+AGG 0.606941 2.1:-67400516 MS.gene002753:CDS
GAGATATGTGAATTGCTATG+AGG 0.610774 2.1:-67400096 MS.gene002753:CDS
AGATCCTCAGAGACTTTGAA+AGG 0.621290 2.1:+67400128 None:intergenic
ATGCGTATAAGAAATGGGGT+TGG 0.624037 2.1:-67400388 MS.gene002753:CDS
AGAGACTTTGAAAGGTGTAG+GGG 0.645255 2.1:+67400136 None:intergenic
TACACCTTTCAAAGTCTCTG+AGG 0.664130 2.1:-67400132 MS.gene002753:CDS
ACAGATGCCAACATACACCA+TGG 0.670800 2.1:+67400329 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGATTAATGCGTATAAGAAA+TGG - chr2.1:67400167-67400186 MS.gene002753:CDS 25.0%
! ATAAGGAAAAACGTATTGTT+AGG + chr2.1:67400103-67400122 None:intergenic 25.0%
! ATTAATGCGTATAAGAAATG+GGG - chr2.1:67400169-67400188 MS.gene002753:CDS 25.0%
! GATTAATGCGTATAAGAAAT+GGG - chr2.1:67400168-67400187 MS.gene002753:CDS 25.0%
! TTGAAATTTCTTCAATCCAA+AGG - chr2.1:67400382-67400401 MS.gene002753:CDS 25.0%
!!! CATAAGAAGTATTGGATATT+TGG + chr2.1:67400323-67400342 None:intergenic 25.0%
!!! GTTTTGGAAGTAAAACAATT+AGG - chr2.1:67400070-67400089 MS.gene002753:CDS 25.0%
AATACTTCTTATGCTGAGTT+TGG - chr2.1:67400330-67400349 MS.gene002753:CDS 30.0%
ATTAATCTTCCTTTCCCATA+CGG + chr2.1:67400155-67400174 None:intergenic 30.0%
TATGCTGAGTTTGGAAAAAA+GGG - chr2.1:67400339-67400358 MS.gene002753:CDS 30.0%
TCAATCCAAAGGTTTGATTA+AGG - chr2.1:67400393-67400412 MS.gene002753:CDS 30.0%
TTATGCTGAGTTTGGAAAAA+AGG - chr2.1:67400338-67400357 MS.gene002753:CDS 30.0%
! AAACTCAGCATAAGAAGTAT+TGG + chr2.1:67400331-67400350 None:intergenic 30.0%
!!! CAGTTTTTTGTCAATCACAT+GGG - chr2.1:67400277-67400296 MS.gene002753:CDS 30.0%
AGCATCCTTAATCAAACCTT+TGG + chr2.1:67400401-67400420 None:intergenic 35.0%
GAGATATGTGAATTGCTATG+AGG - chr2.1:67400465-67400484 MS.gene002753:CDS 35.0%
GGAAAAAAGGGTTATTCCTA+GGG - chr2.1:67400351-67400370 MS.gene002753:CDS 35.0%
TGGAAAAAAGGGTTATTCCT+AGG - chr2.1:67400350-67400369 MS.gene002753:CDS 35.0%
! AGATTAGTCCAAAATCCGTA+TGG - chr2.1:67400137-67400156 MS.gene002753:CDS 35.0%
! AGTATTTGAGAAGGCAGTTT+TGG - chr2.1:67400054-67400073 MS.gene002753:CDS 35.0%
! GATTAGTCCAAAATCCGTAT+GGG - chr2.1:67400138-67400157 MS.gene002753:CDS 35.0%
! TTTTGTCAATCACATGGGTT+GGG - chr2.1:67400282-67400301 MS.gene002753:CDS 35.0%
! TTTTTGTCAATCACATGGGT+TGG - chr2.1:67400281-67400300 MS.gene002753:CDS 35.0%
!!! CAGCATTTTTGAAGTATCCA+TGG - chr2.1:67400215-67400234 MS.gene002753:CDS 35.0%
!!! GCAGTTTTTTGTCAATCACA+TGG - chr2.1:67400276-67400295 MS.gene002753:CDS 35.0%
AATTTCAACGCAAAAGCCCT+AGG + chr2.1:67400370-67400389 None:intergenic 40.0%
AGATCCTCAGAGACTTTGAA+AGG + chr2.1:67400436-67400455 None:intergenic 40.0%
ATGCGTATAAGAAATGGGGT+TGG - chr2.1:67400173-67400192 MS.gene002753:CDS 40.0%
GAAACCTGCAGTATTTGAGA+AGG - chr2.1:67400045-67400064 MS.gene002753:CDS 40.0%
TACACCTTTCAAAGTCTCTG+AGG - chr2.1:67400429-67400448 MS.gene002753:CDS 40.0%
! AGAGACTTTGAAAGGTGTAG+GGG + chr2.1:67400428-67400447 None:intergenic 40.0%
! CAGAGACTTTGAAAGGTGTA+GGG + chr2.1:67400429-67400448 None:intergenic 40.0%
! GAAGTATCCATGGTGTATGT+TGG - chr2.1:67400225-67400244 MS.gene002753:CDS 40.0%
! TCAGAGACTTTGAAAGGTGT+AGG + chr2.1:67400430-67400449 None:intergenic 40.0%
! TTCCTTTCCCATACGGATTT+TGG + chr2.1:67400148-67400167 None:intergenic 40.0%
ACAGATGCCAACATACACCA+TGG + chr2.1:67400235-67400254 None:intergenic 45.0%
ACTGCCTTCTCAAATACTGC+AGG + chr2.1:67400052-67400071 None:intergenic 45.0%
ATGGTGTATGTTGGCATCTG+TGG - chr2.1:67400234-67400253 MS.gene002753:CDS 45.0%
GTCCAAAATCCGTATGGGAA+AGG - chr2.1:67400143-67400162 MS.gene002753:CDS 45.0%
TCTTAGCATGCAGCGCGATA+AGG + chr2.1:67400120-67400139 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 67400034 67400549 67400034 ID=MS.gene002753
chr2.1 mRNA 67400034 67400549 67400034 ID=MS.gene002753.t1;Parent=MS.gene002753
chr2.1 exon 67400034 67400549 67400034 ID=MS.gene002753.t1.exon1;Parent=MS.gene002753.t1
chr2.1 CDS 67400034 67400549 67400034 ID=cds.MS.gene002753.t1;Parent=MS.gene002753.t1
Gene Sequence

>MS.gene002753

ATGCTCTCTAAGAAACCTGCAGTATTTGAGAAGGCAGTTTTGGAAGTAAAACAATTAGGATTCAATCCTAACAATACGTTTTTCCTTATCGCGCTGCATGCTAAGATTAGTCCAAAATCCGTATGGGAAAGGAAGATTAATGCGTATAAGAAATGGGGTTGGTCTGATGAAGTTATTGTCTCAGCATTTTTGAAGTATCCATGGTGTATGTTGGCATCTGTGGAAAAAATTGAAGCAGTGATGCAGTTTTTTGTCAATCACATGGGTTGGGAGTCTAATGTGCTTGCCAAATATCCAATACTTCTTATGCTGAGTTTGGAAAAAAGGGTTATTCCTAGGGCTTTTGCGTTGAAATTTCTTCAATCCAAAGGTTTGATTAAGGATGCTAAGTCCCCTACACCTTTCAAAGTCTCTGAGGATCTGTTTTTGAAGAGATATGTGAATTGCTATGAGGAAGAAGCATCTCAGCTGTTGAAGTTGTATGAAGAGAAAAGAGATGCTTCAACTTTCAAATAA
Protein sequence

>MS.gene002753.t1

MLSKKPAVFEKAVLEVKQLGFNPNNTFFLIALHAKISPKSVWERKINAYKKWGWSDEVIVSAFLKYPWCMLASVEKIEAVMQFFVNHMGWESNVLAKYPILLMLSLEKRVIPRAFALKFLQSKGLIKDAKSPTPFKVSEDLFLKRYVNCYEEEASQLLKLYEEKRDASTFK