AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene72495

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene72495.t1 MTR_4g035905 94.898 196 10 0 1 196 1 196 4.02e-138 384
MS.gene72495.t1 MTR_4g035870 88.265 196 23 0 1 196 1 196 2.38e-126 354
MS.gene72495.t1 MTR_4g035880 87.245 196 25 0 1 196 1 196 3.13e-124 348
MS.gene72495.t1 MTR_3g008840 48.485 165 83 1 34 196 23 187 3.46e-48 155
MS.gene72495.t1 MTR_3g008820 47.273 165 85 1 34 196 22 186 2.18e-47 154
MS.gene72495.t1 MTR_5g012000 42.683 164 91 1 36 196 48 211 9.49e-44 145
MS.gene72495.t1 MTR_4g101760 38.857 175 104 1 25 196 28 202 2.19e-39 134
MS.gene72495.t1 MTR_4g120825 40.000 170 88 4 36 193 35 202 1.54e-36 126
MS.gene72495.t1 MTR_4g120830 39.412 170 89 4 36 193 35 202 4.44e-36 125
MS.gene72495.t1 MTR_8g104765 39.412 170 89 4 36 193 44 211 1.48e-35 124
MS.gene72495.t1 MTR_2g043560 40.000 165 85 4 36 195 34 189 2.47e-31 113
MS.gene72495.t1 MTR_3g008760 36.478 159 98 2 36 191 66 224 3.28e-31 113
MS.gene72495.t1 MTR_7g108790 35.802 162 96 2 37 195 34 190 4.01e-31 112
MS.gene72495.t1 MTR_4g035855 34.694 196 117 3 8 193 8 202 4.13e-30 110
MS.gene72495.t1 MTR_1g088540 39.516 124 73 1 72 195 22 143 8.17e-27 100
MS.gene72495.t1 MTR_4g124855 32.075 212 113 5 1 195 2 199 1.24e-24 96.3
MS.gene72495.t1 MTR_4g025610 36.364 176 91 5 36 196 32 201 1.55e-21 88.2
MS.gene72495.t1 MTR_4g025590 35.795 176 92 5 36 196 3 172 3.55e-21 86.3
MS.gene72495.t1 MTR_4g025550 34.483 203 106 7 10 196 10 201 4.31e-21 87.0
MS.gene72495.t1 MTR_4g025620 32.843 204 107 6 8 196 13 201 3.21e-20 84.7
MS.gene72495.t1 MTR_3g091380 31.868 182 107 4 19 189 59 234 7.84e-19 84.0
MS.gene72495.t1 MTR_1g008140 31.977 172 88 5 37 189 82 243 6.70e-17 78.6
MS.gene72495.t1 MTR_7g112590 29.167 168 97 5 37 195 59 213 2.00e-16 77.0
MS.gene72495.t1 MTR_7g112580 39.091 110 54 4 87 192 94 194 4.18e-15 73.2
MS.gene72495.t1 MTR_8g023310 28.846 156 106 3 37 188 68 222 4.99e-15 73.2
MS.gene72495.t1 MTR_0036s0140 26.087 184 123 4 8 189 49 221 3.57e-14 68.9
MS.gene72495.t1 MTR_8g023150 31.928 166 92 5 37 192 77 231 3.73e-13 67.4
MS.gene72495.t1 MTR_1g083510 26.875 160 107 4 37 193 56 208 6.07e-13 67.0
MS.gene72495.t1 MTR_7g108905 25.654 191 126 3 10 192 18 200 2.33e-12 65.1
MS.gene72495.t1 MTR_1g083470 27.950 161 106 4 37 193 58 212 6.77e-12 63.9
MS.gene72495.t1 MTR_1g083500 27.950 161 106 4 37 193 58 212 6.77e-12 63.9
MS.gene72495.t1 MTR_4g005170 25.000 176 122 4 26 197 52 221 1.36e-11 63.2
MS.gene72495.t1 MTR_8g104580 28.750 160 91 5 40 192 27 170 1.59e-11 62.8
MS.gene72495.t1 MTR_1g083490 26.752 157 105 4 41 193 67 217 3.78e-11 61.6
MS.gene72495.t1 MTR_8g104655 28.125 160 92 5 40 192 35 178 6.77e-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.gene72495.t1 AT5G62360 59.259 162 65 1 36 197 43 203 9.31e-64 196
MS.gene72495.t1 AT5G62350 47.273 165 83 1 36 196 38 202 2.58e-44 146
MS.gene72495.t1 AT1G62770 46.591 176 88 3 28 197 25 200 7.90e-44 145
MS.gene72495.t1 AT1G14890 41.026 195 102 4 9 195 28 217 1.25e-41 140
MS.gene72495.t1 AT1G62760 45.882 170 87 2 30 196 141 308 2.45e-41 142
MS.gene72495.t1 AT4G25260 39.896 193 110 2 10 196 9 201 3.07e-40 136
MS.gene72495.t1 AT2G01610 40.838 191 95 4 21 193 27 217 4.76e-40 136
MS.gene72495.t1 AT3G47380 44.848 165 87 1 36 196 38 202 7.57e-40 135
MS.gene72495.t1 AT5G51520 38.776 196 107 5 9 192 8 202 9.81e-38 129
MS.gene72495.t1 AT4G25250 38.889 162 96 2 31 189 32 193 2.44e-37 128
MS.gene72495.t1 AT5G20740 36.316 190 111 3 8 192 9 193 6.25e-37 127
MS.gene72495.t1 AT5G20740 40.373 161 90 2 37 192 68 227 2.53e-36 127
MS.gene72495.t1 AT4G12390 43.976 166 88 1 36 196 39 204 2.92e-34 120
MS.gene72495.t1 AT1G70720 36.126 191 110 4 10 193 9 194 7.99e-33 117
MS.gene72495.t1 AT1G70720 36.126 191 110 4 10 193 21 206 1.03e-32 117
MS.gene72495.t1 AT1G23205 38.728 173 94 4 30 191 27 198 5.64e-29 107
MS.gene72495.t1 AT3G62820 32.620 187 117 5 11 193 9 190 3.02e-24 94.7
MS.gene72495.t1 AT2G47670 36.250 160 97 2 36 193 48 204 2.69e-23 92.8
MS.gene72495.t1 AT4G00080 33.333 168 92 6 36 189 35 196 1.44e-20 85.5
MS.gene72495.t1 AT5G53370 33.766 154 97 3 37 189 111 260 4.21e-20 87.8
MS.gene72495.t1 AT5G53370 33.766 154 97 3 37 189 75 224 4.99e-20 87.4
MS.gene72495.t1 AT1G53830 30.380 158 108 2 37 192 62 219 1.48e-19 86.3
MS.gene72495.t1 AT3G14310 28.402 169 119 2 26 192 48 216 1.18e-18 83.6
MS.gene72495.t1 AT3G49220 31.073 177 102 7 18 189 117 278 1.26e-15 74.7
MS.gene72495.t1 AT3G49220 31.073 177 102 7 18 189 72 233 2.33e-15 73.9
MS.gene72495.t1 AT3G49220 31.073 177 102 7 18 189 117 278 2.74e-15 73.9
MS.gene72495.t1 AT3G05610 28.750 160 104 4 37 193 58 210 7.46e-15 72.8
MS.gene72495.t1 AT5G27870 28.571 161 103 5 37 193 57 209 1.26e-14 72.0
MS.gene72495.t1 AT3G47670 31.056 161 101 5 37 192 113 268 5.84e-14 68.9
MS.gene72495.t1 AT3G14300 27.976 168 107 4 37 193 271 435 3.19e-12 65.1
MS.gene72495.t1 AT2G26450 28.402 169 100 4 37 197 109 264 6.02e-11 61.2
MS.gene72495.t1 AT3G05620 25.123 203 125 7 9 192 7 201 8.35e-11 60.8

Find 41 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGATGCAAGAGTCACGTTT+AGG 0.288631 4.2:-69230357 None:intergenic
CCTCTCTTGGCTTCAGCCCA+TGG 0.324228 4.2:-69230420 None:intergenic
TGAATAATGTGTTTGATTGT+TGG 0.360872 4.2:-69230228 None:intergenic
TTCATAGCTGCAGCCTCTCT+TGG 0.381059 4.2:-69230433 None:intergenic
TGATGCAAGAGTCACGTTTA+GGG 0.405900 4.2:-69230356 None:intergenic
AAGCACGCGATTTGTTTGAA+TGG 0.408600 4.2:-69230320 None:intergenic
CAATGAGTGATGTACAAACT+TGG 0.417018 4.2:+69230548 MS.gene72495:CDS
TCAATTGACTAGCAATGCTT+TGG 0.428416 4.2:+69230678 MS.gene72495:CDS
AATGTGTTTGATTGTTGGTA+TGG 0.433048 4.2:-69230223 None:intergenic
GCGATTTGTTTGAATGGAAT+CGG 0.438794 4.2:-69230314 None:intergenic
GGTATGGTCTTTCAATTGCT+TGG 0.442357 4.2:-69230207 None:intergenic
TTGGGTCAGTGCCGCTTTGA+CGG 0.448660 4.2:+69230567 MS.gene72495:CDS
AAGAGAGGCTGCAGCTATGA+AGG 0.454048 4.2:+69230435 MS.gene72495:CDS
TGGAATCGGCATGCTTCACT+AGG 0.461647 4.2:-69230300 None:intergenic
TCGGTGAAATGAGTCGCCTT+AGG 0.484339 4.2:+69230506 MS.gene72495:CDS
ACTCGAAATTTGAAGTCCTA+AGG 0.502920 4.2:-69230522 None:intergenic
ACTGTTGTCTGAACATTACC+CGG 0.509996 4.2:-69230631 None:intergenic
AGGGAGGTGTAGCATAGTCT+TGG 0.512506 4.2:-69230280 None:intergenic
ATTCGAAGAGATTAATGCCC+CGG 0.519303 4.2:+69230612 MS.gene72495:CDS
GATGAACTACGAAGGTCTAT+CGG 0.538573 4.2:+69230487 MS.gene72495:CDS
TCAACTCTCTCGAAAAGCCA+TGG 0.561307 4.2:+69230403 MS.gene72495:CDS
CTGTTGTCTGAACATTACCC+GGG 0.565359 4.2:-69230630 None:intergenic
AATGAGTGATGTACAAACTT+GGG 0.584779 4.2:+69230549 MS.gene72495:CDS
TTCGAAGAGATTAATGCCCC+GGG 0.592913 4.2:+69230613 MS.gene72495:CDS
CAACTCTCTCGAAAAGCCAT+GGG 0.604166 4.2:+69230404 MS.gene72495:CDS
TGCATCAGCGAAATCAACCT+CGG 0.612610 4.2:+69230372 MS.gene72495:CDS
AGAGTGTGTAATGAAACTAA+AGG 0.619326 4.2:-69230182 None:intergenic
ATCGGCATGCTTCACTAGGG+AGG 0.623272 4.2:-69230296 None:intergenic
CCATGGGCTGAAGCCAAGAG+AGG 0.628752 4.2:+69230420 MS.gene72495:CDS
TAATGTTCAGACAACAGTGA+GGG 0.629715 4.2:+69230636 MS.gene72495:CDS
GGAATCGGCATGCTTCACTA+GGG 0.640072 4.2:-69230299 None:intergenic
ATTAATCTCTTCGAATCCGT+CGG 0.641331 4.2:-69230605 None:intergenic
GATGAGAGTACTTGTACCGA+CGG 0.647497 4.2:+69230589 MS.gene72495:CDS
AATGTTCAGACAACAGTGAG+GGG 0.648112 4.2:+69230637 MS.gene72495:CDS
AGACCTTCGTAGTTCATCAA+CGG 0.656485 4.2:-69230482 None:intergenic
GAGAGTTGATATCACAGCCG+AGG 0.662740 4.2:-69230389 None:intergenic
AGTACTCTCATCCGTCAAAG+CGG 0.677243 4.2:-69230578 None:intergenic
ATGTTCAGACAACAGTGAGG+GGG 0.702260 4.2:+69230638 MS.gene72495:CDS
TGTTGTCTGAACATTACCCG+GGG 0.730077 4.2:-69230629 None:intergenic
ACTCCGTTGATGAACTACGA+AGG 0.736509 4.2:+69230479 MS.gene72495:CDS
GTAATGTTCAGACAACAGTG+AGG 0.737385 4.2:+69230635 MS.gene72495:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAAGGCAAAAATTATTAGA+AGG - chr4.2:69230168-69230187 None:intergenic 20.0%
! TGAATAATGTGTTTGATTGT+TGG - chr4.2:69230231-69230250 None:intergenic 25.0%
AATGAGTGATGTACAAACTT+GGG + chr4.2:69230549-69230568 MS.gene72495:CDS 30.0%
AATGTGTTTGATTGTTGGTA+TGG - chr4.2:69230226-69230245 None:intergenic 30.0%
AGAGTGTGTAATGAAACTAA+AGG - chr4.2:69230185-69230204 None:intergenic 30.0%
ATTAATCTCTTCGAATCCGT+CGG - chr4.2:69230608-69230627 None:intergenic 35.0%
CAATGAGTGATGTACAAACT+TGG + chr4.2:69230548-69230567 MS.gene72495:CDS 35.0%
TAATGTTCAGACAACAGTGA+GGG + chr4.2:69230636-69230655 MS.gene72495:CDS 35.0%
TCAATTGACTAGCAATGCTT+TGG + chr4.2:69230678-69230697 MS.gene72495:CDS 35.0%
! ACTCGAAATTTGAAGTCCTA+AGG - chr4.2:69230525-69230544 None:intergenic 35.0%
! GCGATTTGTTTGAATGGAAT+CGG - chr4.2:69230317-69230336 None:intergenic 35.0%
AATGTTCAGACAACAGTGAG+GGG + chr4.2:69230637-69230656 MS.gene72495:CDS 40.0%
ACTGTTGTCTGAACATTACC+CGG - chr4.2:69230634-69230653 None:intergenic 40.0%
AGACCTTCGTAGTTCATCAA+CGG - chr4.2:69230485-69230504 None:intergenic 40.0%
ATTCGAAGAGATTAATGCCC+CGG + chr4.2:69230612-69230631 MS.gene72495:CDS 40.0%
GATGAACTACGAAGGTCTAT+CGG + chr4.2:69230487-69230506 MS.gene72495:CDS 40.0%
GGTATGGTCTTTCAATTGCT+TGG - chr4.2:69230210-69230229 None:intergenic 40.0%
GTAATGTTCAGACAACAGTG+AGG + chr4.2:69230635-69230654 MS.gene72495:CDS 40.0%
TGATGCAAGAGTCACGTTTA+GGG - chr4.2:69230359-69230378 None:intergenic 40.0%
! AAGCACGCGATTTGTTTGAA+TGG - chr4.2:69230323-69230342 None:intergenic 40.0%
AGTACTCTCATCCGTCAAAG+CGG - chr4.2:69230581-69230600 None:intergenic 45.0%
ATGTTCAGACAACAGTGAGG+GGG + chr4.2:69230638-69230657 MS.gene72495:CDS 45.0%
CAACTCTCTCGAAAAGCCAT+GGG + chr4.2:69230404-69230423 MS.gene72495:CDS 45.0%
CTGATGCAAGAGTCACGTTT+AGG - chr4.2:69230360-69230379 None:intergenic 45.0%
CTGTTGTCTGAACATTACCC+GGG - chr4.2:69230633-69230652 None:intergenic 45.0%
TCAACTCTCTCGAAAAGCCA+TGG + chr4.2:69230403-69230422 MS.gene72495:CDS 45.0%
TGCATCAGCGAAATCAACCT+CGG + chr4.2:69230372-69230391 MS.gene72495:CDS 45.0%
TGTTGTCTGAACATTACCCG+GGG - chr4.2:69230632-69230651 None:intergenic 45.0%
TTCGAAGAGATTAATGCCCC+GGG + chr4.2:69230613-69230632 MS.gene72495:CDS 45.0%
! ACTCCGTTGATGAACTACGA+AGG + chr4.2:69230479-69230498 MS.gene72495:CDS 45.0%
! TCGCGTGCTTTTAACATGCA+CGG + chr4.2:69230333-69230352 MS.gene72495:CDS 45.0%
!! GATGAGAGTACTTGTACCGA+CGG + chr4.2:69230589-69230608 MS.gene72495:CDS 45.0%
AAGAGAGGCTGCAGCTATGA+AGG + chr4.2:69230435-69230454 MS.gene72495:CDS 50.0%
GGAATCGGCATGCTTCACTA+GGG - chr4.2:69230302-69230321 None:intergenic 50.0%
TCGGTGAAATGAGTCGCCTT+AGG + chr4.2:69230506-69230525 MS.gene72495:CDS 50.0%
TGGAATCGGCATGCTTCACT+AGG - chr4.2:69230303-69230322 None:intergenic 50.0%
TTCATAGCTGCAGCCTCTCT+TGG - chr4.2:69230436-69230455 None:intergenic 50.0%
! AGGGAGGTGTAGCATAGTCT+TGG - chr4.2:69230283-69230302 None:intergenic 50.0%
!! GAGAGTTGATATCACAGCCG+AGG - chr4.2:69230392-69230411 None:intergenic 50.0%
ATCGGCATGCTTCACTAGGG+AGG - chr4.2:69230299-69230318 None:intergenic 55.0%
!! TTGGGTCAGTGCCGCTTTGA+CGG + chr4.2:69230567-69230586 MS.gene72495:CDS 55.0%
CCTCTCTTGGCTTCAGCCCA+TGG - chr4.2:69230423-69230442 None:intergenic 60.0%
! CCATGGGCTGAAGCCAAGAG+AGG + chr4.2:69230420-69230439 MS.gene72495:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 69230142 69230735 69230142 ID=MS.gene72495
chr4.2 mRNA 69230142 69230735 69230142 ID=MS.gene72495.t1;Parent=MS.gene72495
chr4.2 exon 69230142 69230735 69230142 ID=MS.gene72495.t1.exon1;Parent=MS.gene72495.t1
chr4.2 CDS 69230142 69230735 69230142 ID=cds.MS.gene72495.t1;Parent=MS.gene72495.t1
Gene Sequence

>MS.gene72495

ATGGAGGCTTTTTCTTCAAAGATCCTTCTAATAATTTTTGCCTTTAGTTTCATTACACACTCTATCCAAGCAATTGAAAGACCATACCAACAATCAAACACATTATTCATTAAAAATTCTTGCAGCACTACAACTTATCCAAGACTATGCTACACCTCCCTAGTGAAGCATGCCGATTCCATTCAAACAAATCGCGTGCTTTTAACATGCACGGCCCTAAACGTGACTCTTGCATCAGCGAAATCAACCTCGGCTGTGATATCAACTCTCTCGAAAAGCCATGGGCTGAAGCCAAGAGAGGCTGCAGCTATGAAGGATTGCGTTGAAGTGCTGAGTGACTCCGTTGATGAACTACGAAGGTCTATCGGTGAAATGAGTCGCCTTAGGACTTCAAATTTCGAGTTAACAATGAGTGATGTACAAACTTGGGTCAGTGCCGCTTTGACGGATGAGAGTACTTGTACCGACGGATTCGAAGAGATTAATGCCCCGGGTAATGTTCAGACAACAGTGAGGGGGAAAATTGTGCAAGTAGCTCAATTGACTAGCAATGCTTTGGCTTTGATAAATAAACTTGCTACATCACATAGTTAA
Protein sequence

>MS.gene72495.t1

MEAFSSKILLIIFAFSFITHSIQAIERPYQQSNTLFIKNSCSTTTYPRLCYTSLVKHADSIQTNRVLLTCTALNVTLASAKSTSAVISTLSKSHGLKPREAAAMKDCVEVLSDSVDELRRSIGEMSRLRTSNFELTMSDVQTWVSAALTDESTCTDGFEEINAPGNVQTTVRGKIVQVAQLTSNALALINKLATSHS