AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene82080

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene82080.t1 MTR_0160s0030 96.755 339 8 1 1 336 23 361 0.0 669
MS.gene82080.t1 MTR_4g100860 44.521 292 118 11 47 330 60 315 2.09e-59 194
MS.gene82080.t1 MTR_4g027440 44.529 393 119 16 1 334 24 376 5.67e-53 179
MS.gene82080.t1 MTR_4g109340 39.610 154 50 4 205 317 340 491 8.68e-25 105
MS.gene82080.t1 MTR_5g012630 37.198 207 90 8 38 237 67 240 8.03e-24 99.0
MS.gene82080.t1 MTR_1g067640 40.476 126 60 4 215 326 38 162 6.21e-21 88.6
MS.gene82080.t1 MTR_1g067650 41.880 117 53 4 215 317 39 154 7.34e-21 88.6
MS.gene82080.t1 MTR_7g100100 40.136 147 70 9 188 319 6 149 8.18e-21 88.2
MS.gene82080.t1 MTR_1g106730 37.956 137 64 6 200 316 64 199 1.40e-19 87.0
MS.gene82080.t1 MTR_4g028610 35.404 161 49 5 210 315 222 382 3.13e-19 88.6
MS.gene82080.t1 MTR_2g096540 34.014 147 71 5 178 319 4 129 5.01e-18 79.7
MS.gene82080.t1 MTR_3g102980 39.506 162 70 6 185 320 57 216 5.88e-18 82.0
MS.gene82080.t1 MTR_1g018420 33.155 187 80 7 141 312 37 193 1.84e-16 77.8
MS.gene82080.t1 MTR_1g067660 38.583 127 60 6 215 326 35 158 4.24e-16 75.1
MS.gene82080.t1 MTR_5g062300 41.176 102 40 3 214 295 118 219 7.20e-16 76.6
MS.gene82080.t1 MTR_7g023560 40.367 109 53 4 181 283 6 108 1.59e-15 74.3
MS.gene82080.t1 MTR_4g057230 33.133 166 56 4 215 327 113 276 3.96e-15 75.1
MS.gene82080.t1 MTR_4g082980 52.459 61 21 2 261 316 393 450 6.58e-14 72.8
MS.gene82080.t1 MTR_1g115345 42.683 82 38 2 207 283 41 118 2.45e-13 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene82080.t1 AT3G60580 42.727 330 115 11 1 322 23 286 5.68e-57 186
MS.gene82080.t1 AT2G45120 43.373 332 134 11 1 322 23 310 5.66e-51 172
MS.gene82080.t1 AT1G02030 40.071 282 108 10 57 320 25 263 2.28e-34 127
MS.gene82080.t1 AT3G53600 38.760 129 66 4 215 333 49 174 1.33e-21 90.5
MS.gene82080.t1 AT3G19580 31.222 221 72 8 140 319 64 245 1.98e-21 92.4
MS.gene82080.t1 AT3G19580 31.222 221 72 8 140 319 64 245 1.98e-21 92.4
MS.gene82080.t1 AT2G37430 42.623 122 44 6 214 317 46 159 1.31e-18 82.4
MS.gene82080.t1 AT2G28200 34.416 154 45 5 215 316 115 264 3.52e-18 83.6
MS.gene82080.t1 AT5G61470 46.667 75 40 0 211 285 224 298 1.25e-17 82.4
MS.gene82080.t1 AT5G43170 35.333 150 51 3 142 291 45 148 3.65e-17 79.0
MS.gene82080.t1 AT4G35280 36.719 128 57 4 214 327 161 278 9.42e-17 79.7
MS.gene82080.t1 AT1G49900 47.887 71 35 1 215 283 750 820 1.96e-16 80.9
MS.gene82080.t1 AT1G49900 44.000 75 36 1 215 283 193 267 8.62e-14 72.8
MS.gene82080.t1 AT5G03510 35.616 146 52 4 213 316 116 261 2.30e-16 78.6
MS.gene82080.t1 AT2G28710 37.778 135 61 7 200 319 21 147 3.89e-16 75.1
MS.gene82080.t1 AT2G17180 38.017 121 48 3 214 317 147 257 1.99e-15 75.5
MS.gene82080.t1 AT3G49930 41.739 115 47 4 215 320 94 197 2.20e-15 74.3
MS.gene82080.t1 AT1G27730 33.654 208 63 9 140 319 48 208 2.45e-15 74.7
MS.gene82080.t1 AT5G67450 40.217 92 30 2 215 283 97 186 3.37e-15 74.7
MS.gene82080.t1 AT3G46090 41.739 115 42 6 215 310 40 148 3.59e-15 72.8
MS.gene82080.t1 AT5G59820 53.623 69 29 2 215 283 39 104 4.93e-15 72.4
MS.gene82080.t1 AT1G26610 59.016 61 20 2 259 316 397 455 5.52e-15 75.9
MS.gene82080.t1 AT3G46080 47.368 76 28 3 215 283 37 107 1.55e-14 70.9
MS.gene82080.t1 AT5G04340 41.176 85 31 2 215 283 89 170 1.06e-13 70.1
MS.gene82080.t1 AT3G46070 42.308 78 40 2 211 283 31 108 4.54e-13 67.0
MS.gene82080.t1 AT4G16610 37.288 118 57 4 43 157 52 155 1.22e-12 66.6

Find 38 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGAAAAGGGTCTTAATTA+TGG 0.263811 7.3:+58492624 MS.gene82080:CDS
TTCTCTTTGGATTCTCTCTA+AGG 0.279891 7.3:-58492647 None:intergenic
ACGAGACGAATGCTTCTCTT+TGG 0.315457 7.3:-58492660 None:intergenic
AATTGAAATCGAAAGATCTT+TGG 0.317289 7.3:+58493049 MS.gene82080:CDS
AAAAGAACACATGTGATTCA+TGG 0.392470 7.3:+58493335 MS.gene82080:CDS
AGATGATGACGTTGATGAAA+AGG 0.399134 7.3:+58492611 MS.gene82080:CDS
CTAACTTCATCATCATCAAT+TGG 0.412597 7.3:-58493434 None:intergenic
ACAAAATGCAACATCTTCTT+CGG 0.417782 7.3:-58492925 None:intergenic
TTCAAATCTTATCAAGCATT+GGG 0.429788 7.3:+58493167 MS.gene82080:CDS
GCATCAGAAACCGAACTAAC+AGG 0.435004 7.3:-58492897 None:intergenic
GTTCAAATCTTATCAAGCAT+TGG 0.444666 7.3:+58493166 MS.gene82080:CDS
CTTCTTGCTTTGTAACAAGA+AGG 0.459791 7.3:-58492518 None:intergenic
TGAACATGAACCTGTTAGTT+CGG 0.475159 7.3:+58492887 MS.gene82080:CDS
GATTCTTCCACCGTTATGTT+CGG 0.482402 7.3:-58493221 None:intergenic
GATGATGACGTTGATGAAAA+GGG 0.491203 7.3:+58492612 MS.gene82080:CDS
CAACTAGGAAAAGATCCAAA+AGG 0.492623 7.3:+58492772 MS.gene82080:CDS
TGCAGTTGTCGAGAGACAAA+TGG 0.497909 7.3:+58492952 MS.gene82080:CDS
AAAGAAAGTTCATGAATGTC+CGG 0.517315 7.3:+58493268 MS.gene82080:CDS
AATAATAATAAAGTACGTAA+AGG 0.519533 7.3:+58493113 MS.gene82080:CDS
AACTAGGAAAAGATCCAAAA+GGG 0.532786 7.3:+58492773 MS.gene82080:CDS
TTTAATTCGGGACAAGCACT+TGG 0.537402 7.3:+58493305 MS.gene82080:CDS
AAAGGGTGTGGAAAATTCGC+GGG 0.538446 7.3:+58492790 MS.gene82080:CDS
TGATGACGACGAAGCTGAAG+AGG 0.541596 7.3:+58493016 MS.gene82080:CDS
GGAAAAGATCCAAAAGGGTG+TGG 0.547103 7.3:+58492778 MS.gene82080:CDS
ACAGAACTTGTATCCACTTG+TGG 0.549151 7.3:-58492702 None:intergenic
TCATCATCATCAATTGGAGC+AGG 0.554191 7.3:-58493428 None:intergenic
AAAAGGGTGTGGAAAATTCG+CGG 0.559838 7.3:+58492789 MS.gene82080:CDS
AATTCGGGACAAGCACTTGG+TGG 0.563519 7.3:+58493308 MS.gene82080:CDS
CATCGAAGAATAATCCAACT+AGG 0.564243 7.3:+58492757 MS.gene82080:CDS
GAAGATTAAACCGAACATAA+CGG 0.578318 7.3:+58493211 MS.gene82080:CDS
TTAAATACTCGAAAACATAC+CGG 0.600102 7.3:-58493287 None:intergenic
ATAATAAAGTACGTAAAGGA+AGG 0.605908 7.3:+58493117 MS.gene82080:CDS
CATCATCAATTGGAGCAGGA+AGG 0.614177 7.3:-58493424 None:intergenic
AAATCTTATCAAGCATTGGG+TGG 0.639931 7.3:+58493170 MS.gene82080:CDS
AGAAGAAGAATCATCGCGAA+CGG 0.649326 7.3:+58492536 MS.gene82080:CDS
TCTGATGACGATGATGAAGA+CGG 0.688378 7.3:-58492588 None:intergenic
AAGTGAACAATATGAAGACG+TGG 0.691850 7.3:+58492983 MS.gene82080:CDS
GATTAAACCGAACATAACGG+TGG 0.692339 7.3:+58493214 MS.gene82080:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATAATAAAGTACGTAA+AGG + chr7.3:58493113-58493132 MS.gene82080:CDS 15.0%
!!! ATGTTTTCGAGTATTTAATT+CGG + chr7.3:58493292-58493311 MS.gene82080:CDS 20.0%
!!! TTTTAACAAGAATGATTCTT+CGG + chr7.3:58492860-58492879 MS.gene82080:CDS 20.0%
! AATTGAAATCGAAAGATCTT+TGG + chr7.3:58493049-58493068 MS.gene82080:CDS 25.0%
! ATAATAAAGTACGTAAAGGA+AGG + chr7.3:58493117-58493136 MS.gene82080:CDS 25.0%
! TTAAATACTCGAAAACATAC+CGG - chr7.3:58493290-58493309 None:intergenic 25.0%
! TTCAAATCTTATCAAGCATT+GGG + chr7.3:58493167-58493186 MS.gene82080:CDS 25.0%
!!! TGTTTTCGAGTATTTAATTC+GGG + chr7.3:58493293-58493312 MS.gene82080:CDS 25.0%
AAAAGAACACATGTGATTCA+TGG + chr7.3:58493335-58493354 MS.gene82080:CDS 30.0%
AAAGAAAGTTCATGAATGTC+CGG + chr7.3:58493268-58493287 MS.gene82080:CDS 30.0%
AACTAGGAAAAGATCCAAAA+GGG + chr7.3:58492773-58492792 MS.gene82080:CDS 30.0%
ACAAAATGCAACATCTTCTT+CGG - chr7.3:58492928-58492947 None:intergenic 30.0%
CTAACTTCATCATCATCAAT+TGG - chr7.3:58493437-58493456 None:intergenic 30.0%
GAAGATTAAACCGAACATAA+CGG + chr7.3:58493211-58493230 MS.gene82080:CDS 30.0%
GATGAAAAGGGTCTTAATTA+TGG + chr7.3:58492624-58492643 MS.gene82080:CDS 30.0%
GTTCAAATCTTATCAAGCAT+TGG + chr7.3:58493166-58493185 MS.gene82080:CDS 30.0%
! TTTTCAACAACTTCGAATTC+TGG - chr7.3:58493251-58493270 None:intergenic 30.0%
!! ACTCTTTTTGAGCTGAAAAT+TGG - chr7.3:58493380-58493399 None:intergenic 30.0%
AAGTGAACAATATGAAGACG+TGG + chr7.3:58492983-58493002 MS.gene82080:CDS 35.0%
CAACTAGGAAAAGATCCAAA+AGG + chr7.3:58492772-58492791 MS.gene82080:CDS 35.0%
CATCGAAGAATAATCCAACT+AGG + chr7.3:58492757-58492776 MS.gene82080:CDS 35.0%
CTTCTTGCTTTGTAACAAGA+AGG - chr7.3:58492521-58492540 None:intergenic 35.0%
TGAACATGAACCTGTTAGTT+CGG + chr7.3:58492887-58492906 MS.gene82080:CDS 35.0%
TTCTCTTTGGATTCTCTCTA+AGG - chr7.3:58492650-58492669 None:intergenic 35.0%
! AGAGTTTTCTTTTCCACAAG+TGG + chr7.3:58492689-58492708 MS.gene82080:CDS 35.0%
! AGATGATGACGTTGATGAAA+AGG + chr7.3:58492611-58492630 MS.gene82080:CDS 35.0%
! CTTTTGGATCTTTTCCTAGT+TGG - chr7.3:58492774-58492793 None:intergenic 35.0%
! GATGATGACGTTGATGAAAA+GGG + chr7.3:58492612-58492631 MS.gene82080:CDS 35.0%
!! AAATCTTATCAAGCATTGGG+TGG + chr7.3:58493170-58493189 MS.gene82080:CDS 35.0%
ACAGAACTTGTATCCACTTG+TGG - chr7.3:58492705-58492724 None:intergenic 40.0%
AGAAGAAGAATCATCGCGAA+CGG + chr7.3:58492536-58492555 MS.gene82080:CDS 40.0%
GATTAAACCGAACATAACGG+TGG + chr7.3:58493214-58493233 MS.gene82080:CDS 40.0%
GATTCTTCCACCGTTATGTT+CGG - chr7.3:58493224-58493243 None:intergenic 40.0%
TCATCATCATCAATTGGAGC+AGG - chr7.3:58493431-58493450 None:intergenic 40.0%
TTTAATTCGGGACAAGCACT+TGG + chr7.3:58493305-58493324 MS.gene82080:CDS 40.0%
! AAAAGGGTGTGGAAAATTCG+CGG + chr7.3:58492789-58492808 MS.gene82080:CDS 40.0%
! TCTGATGACGATGATGAAGA+CGG - chr7.3:58492591-58492610 None:intergenic 40.0%
ACGAGACGAATGCTTCTCTT+TGG - chr7.3:58492663-58492682 None:intergenic 45.0%
CATCATCAATTGGAGCAGGA+AGG - chr7.3:58493427-58493446 None:intergenic 45.0%
GCATCAGAAACCGAACTAAC+AGG - chr7.3:58492900-58492919 None:intergenic 45.0%
GGAAAAGATCCAAAAGGGTG+TGG + chr7.3:58492778-58492797 MS.gene82080:CDS 45.0%
TGCAGTTGTCGAGAGACAAA+TGG + chr7.3:58492952-58492971 MS.gene82080:CDS 45.0%
! AAAGGGTGTGGAAAATTCGC+GGG + chr7.3:58492790-58492809 MS.gene82080:CDS 45.0%
! GCGAATTTTCCACACCCTTT+TGG - chr7.3:58492790-58492809 None:intergenic 45.0%
AATTCGGGACAAGCACTTGG+TGG + chr7.3:58493308-58493327 MS.gene82080:CDS 50.0%
! TGATGACGACGAAGCTGAAG+AGG + chr7.3:58493016-58493035 MS.gene82080:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 58492498 58493508 58492498 ID=MS.gene82080
chr7.3 mRNA 58492498 58493508 58492498 ID=MS.gene82080.t1;Parent=MS.gene82080
chr7.3 exon 58492498 58493508 58492498 ID=MS.gene82080.t1.exon1;Parent=MS.gene82080.t1
chr7.3 CDS 58492498 58493508 58492498 ID=cds.MS.gene82080.t1;Parent=MS.gene82080.t1
Gene Sequence

>MS.gene82080

ATGAGATCTCATATGATGAACCTTCTTGTTACAAAGCAAGAAGAAGAATCATCGCGAACGGTTCAACTTAGTTTCGAAGCTGAATCAGCACCGTCTTCATCATCGTCATCAGAAGATGATGACGTTGATGAAAAGGGTCTTAATTATGGCCTTAGAGAGAATCCAAAGAGAAGCATTCGTCTCGTAGATCAAGAGTTTTCTTTTCCACAAGTGGATACAAGTTCTGTTATTGTTCAAGATATAGAAAGCGAAACTGAATCATCGAAGAATAATCCAACTAGGAAAAGATCCAAAAGGGTGTGGAAAATTCGCGGGTTTGATCATAAGTATTACAACGAATCTGCTACGAAGAAAATGAAATTTTTTAACAAGAATGATTCTTCGGTTGTTGAACATGAACCTGTTAGTTCGGTTTCTGATGCAACAACCGAAGAAGATGTTGCATTTTGTCTAATGCAGTTGTCGAGAGACAAATGGAATAGACAAAGTGAACAATATGAAGACGTGGAAGAAGAAGATGATGACGACGAAGCTGAAGAGGAAGAAGATGAAATTGAAATCGAAAGATCTTTGGAAGATAGTGATGAATCTCAAGAGCTAGTAAAAGTATGCAAGAATAATAATAAAGTACGTAAAGGAAGGTACAAATGTGAAACATGTAATAAAGTGTTCAAATCTTATCAAGCATTGGGTGGTCATAGAGCAAGTCACAAGAAGATTAAACCGAACATAACGGTGGAAGAATCGTCGCCAGAATTCGAAGTTGTTGAAAAGAAAGTTCATGAATGTCCGGTATGTTTTCGAGTATTTAATTCGGGACAAGCACTTGGTGGACACAAAAGAACACATGTGATTCATGGATCATCATCAACAACAGTTCCAATTTTCAGCTCAAAAAGAGTTGCAAAAAGTGTTATAGATCTTAACCTTCCTGCTCCAATTGATGATGATGAAGTTAGTCAAATTGAAAATTCTGCTGTTTCTGATGCAGAATTTGTCAAAACTCGTTAA
Protein sequence

>MS.gene82080.t1

MRSHMMNLLVTKQEEESSRTVQLSFEAESAPSSSSSSEDDDVDEKGLNYGLRENPKRSIRLVDQEFSFPQVDTSSVIVQDIESETESSKNNPTRKRSKRVWKIRGFDHKYYNESATKKMKFFNKNDSSVVEHEPVSSVSDATTEEDVAFCLMQLSRDKWNRQSEQYEDVEEEDDDDEAEEEEDEIEIERSLEDSDESQELVKVCKNNNKVRKGRYKCETCNKVFKSYQALGGHRASHKKIKPNITVEESSPEFEVVEKKVHECPVCFRVFNSGQALGGHKRTHVIHGSSSTTVPIFSSKRVAKSVIDLNLPAPIDDDEVSQIENSAVSDAEFVKTR