AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene017566

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017566.t1 MTR_8g074420 94.828 290 15 0 1 290 1 290 0.0 537
MS.gene017566.t1 MTR_8g074450 81.379 290 54 0 1 290 1 290 4.18e-170 473
MS.gene017566.t1 MTR_8g074510 81.034 290 53 1 1 290 1 288 6.33e-166 462
MS.gene017566.t1 MTR_5g023350 68.750 288 84 2 2 289 3 284 7.98e-132 375
MS.gene017566.t1 MTR_5g023600 68.403 288 85 2 2 289 3 284 3.42e-131 374
MS.gene017566.t1 MTR_5g023370 67.361 288 88 2 2 289 3 284 6.89e-129 368
MS.gene017566.t1 MTR_5g023340 67.014 288 89 2 2 289 3 284 2.79e-128 366
MS.gene017566.t1 MTR_5g023390 66.319 288 91 2 2 289 3 284 4.99e-128 366
MS.gene017566.t1 MTR_5g023520 65.172 290 96 1 1 290 1 285 7.88e-128 365
MS.gene017566.t1 MTR_5g023550 65.398 289 94 2 1 289 1 283 6.49e-125 358
MS.gene017566.t1 MTR_5g023320 66.552 290 87 4 2 290 3 283 3.49e-124 356
MS.gene017566.t1 MTR_5g023530 64.605 291 95 4 1 289 1 285 5.99e-122 350
MS.gene017566.t1 MTR_5g023470 63.918 291 97 4 1 289 1 285 3.86e-120 346
MS.gene017566.t1 MTR_5g023580 64.685 286 99 1 2 287 3 286 8.79e-120 348
MS.gene017566.t1 MTR_8g074530 47.241 290 149 3 2 289 17 304 4.75e-78 239
MS.gene017566.t1 MTR_5g023460 61.979 192 63 2 99 290 11 192 1.99e-76 231
MS.gene017566.t1 MTR_5g023290 40.604 298 165 4 4 289 11 308 2.00e-63 202
MS.gene017566.t1 MTR_5g023650 32.765 293 185 4 7 289 14 304 1.46e-43 150
MS.gene017566.t1 MTR_8g074380 32.646 291 164 5 7 288 14 281 3.24e-41 145
MS.gene017566.t1 MTR_4g070530 33.681 288 180 5 7 289 14 295 1.00e-38 138
MS.gene017566.t1 MTR_5g023410 68.000 100 32 0 1 100 1 100 2.47e-37 132
MS.gene017566.t1 MTR_4g070570 30.822 292 191 6 5 289 15 302 5.01e-37 134
MS.gene017566.t1 MTR_4g070540 31.119 286 190 4 7 289 14 295 1.49e-35 129
MS.gene017566.t1 MTR_4g070590 33.562 292 179 7 7 289 15 300 1.94e-33 124
MS.gene017566.t1 MTR_3g116920 32.192 292 185 8 5 289 12 297 1.12e-31 119
MS.gene017566.t1 MTR_3g116950 33.904 292 178 11 5 289 12 295 1.31e-31 119
MS.gene017566.t1 MTR_3g115150 26.910 301 188 9 7 289 29 315 4.33e-23 97.1
MS.gene017566.t1 MTR_1g037820 27.869 244 144 6 51 289 9 225 1.67e-19 85.5
MS.gene017566.t1 MTR_5g023540 47.761 67 31 1 165 231 4 66 7.27e-12 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017566.t1 AT4G35690 36.949 295 165 7 1 289 4 283 1.20e-50 169
MS.gene017566.t1 AT2G17680 37.821 312 149 11 1 290 4 292 7.92e-45 154
MS.gene017566.t1 AT4G35710 35.906 298 166 8 1 289 1 282 8.57e-42 145
MS.gene017566.t1 AT2G17080 34.722 288 161 6 1 288 1 261 9.81e-40 139
MS.gene017566.t1 AT2G17070 34.615 286 160 6 1 286 1 259 2.88e-36 130
MS.gene017566.t1 AT4G35200 36.177 293 141 11 1 287 1 253 1.96e-34 125
MS.gene017566.t1 AT4G35210 33.333 288 153 9 1 287 1 250 3.47e-31 117
MS.gene017566.t1 AT4G35660 31.864 295 166 7 7 289 16 287 7.41e-30 114
MS.gene017566.t1 AT4G35720 31.761 318 177 9 5 289 14 324 7.03e-29 112
MS.gene017566.t1 AT4G35680 28.188 298 195 7 6 289 17 309 2.28e-22 95.1
MS.gene017566.t1 AT3G51400 30.169 295 179 9 1 289 1 274 1.83e-19 86.3
MS.gene017566.t1 AT1G76240 29.153 295 177 9 8 289 32 307 6.17e-19 85.5
MS.gene017566.t1 AT3G51410 29.965 287 151 9 7 289 39 279 2.28e-14 72.0
MS.gene017566.t1 AT1G76210 26.667 225 142 5 65 289 24 225 3.30e-14 70.9

Find 55 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGCATATGGATAGCAAATT+TGG 0.135174 8.1:-32366167 MS.gene017566:CDS
ATTTGGGGTGTCCCAAATTT+TGG 0.139964 8.1:-32366150 MS.gene017566:CDS
GATGATCAAGTTCCAAAATT+TGG 0.152831 8.1:+32366138 None:intergenic
CACTATTGGTGAAAAGTTTC+AGG 0.207067 8.1:-32365886 MS.gene017566:CDS
GGATAGTTCAATGAGAATTT+TGG 0.221029 8.1:-32366363 MS.gene017566:CDS
CAATAGTGGATTCACTTAAA+AGG 0.237225 8.1:+32365901 None:intergenic
ATGATCAAGTTCCAAAATTT+GGG 0.315958 8.1:+32366139 None:intergenic
GCTCTATAATTAGAGTGGTT+AGG 0.346875 8.1:-32366109 MS.gene017566:CDS
AGCATATGGATAGCAAATTT+GGG 0.355925 8.1:-32366166 MS.gene017566:CDS
AAGCCCTTCACTCTTGTCTA+AGG 0.365459 8.1:-32366289 MS.gene017566:CDS
CAATGCAGTTCTCACCTCTA+TGG 0.368367 8.1:+32366396 None:intergenic
TGAAGAATTGTATATTTCAT+TGG 0.371711 8.1:-32366462 MS.gene017566:CDS
GATCACAAGTTTGAAGCATA+TGG 0.388619 8.1:-32366180 MS.gene017566:CDS
CTCTATAATTAGAGTGGTTA+GGG 0.390882 8.1:-32366108 MS.gene017566:CDS
GAAATCACTTGTTGGGTTGA+TGG 0.405774 8.1:+32366422 None:intergenic
ACATGAGAGATTGGAGGCTT+TGG 0.408989 8.1:-32365859 MS.gene017566:CDS
TACATCAAGCTCCATTCAAA+CGG 0.450991 8.1:-32366498 MS.gene017566:CDS
TCAGGCTGCACATGAGAGAT+TGG 0.452007 8.1:-32365868 MS.gene017566:CDS
CAAGGAAAGACCCGTTTGAA+TGG 0.453573 8.1:+32366487 None:intergenic
TGTGTCTTCATCAAAGTCTA+AGG 0.455083 8.1:-32366033 MS.gene017566:CDS
TGGATATTTGTGGCATCACT+AGG 0.456088 8.1:-32366343 MS.gene017566:CDS
AATAGTGGATTCACTTAAAA+GGG 0.456111 8.1:+32365902 None:intergenic
GCAATTGAAAGCATTGAGAA+TGG 0.463409 8.1:-32365831 MS.gene017566:CDS
ATGGTGAGAAATCACTTGTT+GGG 0.479630 8.1:+32366415 None:intergenic
TATGGTGAGAAATCACTTGT+TGG 0.484011 8.1:+32366414 None:intergenic
AATATACAATTCTTCAATCA+AGG 0.493373 8.1:+32366469 None:intergenic
GTGCTAGGATGAAATCTAGA+TGG 0.495612 8.1:+32366578 None:intergenic
GGATACAATTCTTCAAATCA+AGG 0.500801 8.1:-32366321 MS.gene017566:CDS
TCTTGTCTAAGGAGAAGAAA+AGG 0.505857 8.1:-32366278 MS.gene017566:CDS
ACATCAAGCTCCATTCAAAC+GGG 0.526245 8.1:-32366497 MS.gene017566:CDS
AGAGATTATGTTCAAGAGGA+AGG 0.527971 8.1:+32365770 None:intergenic
TTCTCCTTAGACAAGAGTGA+AGG 0.531189 8.1:+32366285 None:intergenic
TAAGGCAACCAAATGGTTGT+TGG 0.536702 8.1:-32366015 MS.gene017566:CDS
TCATGTACTCTAATTGTGCT+AGG 0.541777 8.1:+32366563 None:intergenic
GGCTGCACATGAGAGATTGG+AGG 0.542067 8.1:-32365865 MS.gene017566:CDS
CTTCAAACTTGTGATCAACT+TGG 0.545317 8.1:+32366187 None:intergenic
ATTGAGAGATTATGTTCAAG+AGG 0.553521 8.1:+32365766 None:intergenic
TCTCCTTAGACAAGAGTGAA+GGG 0.564139 8.1:+32366286 None:intergenic
CCTTTGCTCTATAATTAGAG+TGG 0.572418 8.1:-32366114 MS.gene017566:CDS
CCACTCTAATTATAGAGCAA+AGG 0.574371 8.1:+32366114 None:intergenic
CAAAGTCTAAGGCAACCAAA+TGG 0.575102 8.1:-32366022 MS.gene017566:CDS
GAACTGCATTGAAGAGGTGT+TGG 0.576026 8.1:-32366384 MS.gene017566:CDS
GGATATTTGTGGCATCACTA+GGG 0.577026 8.1:-32366342 MS.gene017566:CDS
AACAAGCTTAAAACATGGGA+AGG 0.577507 8.1:-32366533 MS.gene017566:CDS
ATTGAACAAGCTTAAAACAT+GGG 0.608973 8.1:-32366537 MS.gene017566:CDS
AATTGAACAAGCTTAAAACA+TGG 0.616486 8.1:-32366538 MS.gene017566:CDS
AATGGAGCTTGATGTAGATG+TGG 0.620161 8.1:+32366505 None:intergenic
TTCAAGTGTTGAAAGAAGTG+TGG 0.622624 8.1:-32366252 MS.gene017566:CDS
TAGCACAATTAGAGTACATG+AGG 0.624704 8.1:-32366561 MS.gene017566:CDS
CAAGTGATTTCTCACCATAG+AGG 0.629127 8.1:-32366410 MS.gene017566:CDS
AGGTGAGAACTGCATTGAAG+AGG 0.633196 8.1:-32366390 MS.gene017566:CDS
TATCAATGAGTTGCAATGTG+TGG 0.636179 8.1:-32365940 MS.gene017566:CDS
GCATATGGATAGCAAATTTG+GGG 0.675116 8.1:-32366165 MS.gene017566:CDS
GGTGACAAAACTAATGCACA+AGG 0.706638 8.1:-32365994 MS.gene017566:CDS
GTGACAAAACTAATGCACAA+GGG 0.759874 8.1:-32365993 MS.gene017566:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATATACAATTCTTCAATCA+AGG + chr8.1:32365912-32365931 None:intergenic 20.0%
!! TGAAGAATTGTATATTTCAT+TGG - chr8.1:32365916-32365935 MS.gene017566:CDS 20.0%
! AATTGAACAAGCTTAAAACA+TGG - chr8.1:32365840-32365859 MS.gene017566:CDS 25.0%
! ATGATCAAGTTCCAAAATTT+GGG + chr8.1:32366242-32366261 None:intergenic 25.0%
! ATTGAACAAGCTTAAAACAT+GGG - chr8.1:32365841-32365860 MS.gene017566:CDS 25.0%
!! ATGAGAATTTTGGATATTTG+TGG - chr8.1:32366025-32366044 MS.gene017566:CDS 25.0%
!!! AATAGTGGATTCACTTAAAA+GGG + chr8.1:32366479-32366498 None:intergenic 25.0%
AAGCATATGGATAGCAAATT+TGG - chr8.1:32366211-32366230 MS.gene017566:CDS 30.0%
AGCATATGGATAGCAAATTT+GGG - chr8.1:32366212-32366231 MS.gene017566:CDS 30.0%
ATTGAGAGATTATGTTCAAG+AGG + chr8.1:32366615-32366634 None:intergenic 30.0%
CTCTATAATTAGAGTGGTTA+GGG - chr8.1:32366270-32366289 MS.gene017566:CDS 30.0%
GATGATCAAGTTCCAAAATT+TGG + chr8.1:32366243-32366262 None:intergenic 30.0%
GGATACAATTCTTCAAATCA+AGG - chr8.1:32366057-32366076 MS.gene017566:CDS 30.0%
! GGATAGTTCAATGAGAATTT+TGG - chr8.1:32366015-32366034 MS.gene017566:CDS 30.0%
!! CAATAGTGGATTCACTTAAA+AGG + chr8.1:32366480-32366499 None:intergenic 30.0%
!! CTTTTAAGTGAATCCACTAT+TGG - chr8.1:32366478-32366497 MS.gene017566:CDS 30.0%
AACAAGCTTAAAACATGGGA+AGG - chr8.1:32365845-32365864 MS.gene017566:CDS 35.0%
AGAGATTATGTTCAAGAGGA+AGG + chr8.1:32366611-32366630 None:intergenic 35.0%
ATGGTGAGAAATCACTTGTT+GGG + chr8.1:32365966-32365985 None:intergenic 35.0%
CACTATTGGTGAAAAGTTTC+AGG - chr8.1:32366492-32366511 MS.gene017566:CDS 35.0%
CCACTCTAATTATAGAGCAA+AGG + chr8.1:32366267-32366286 None:intergenic 35.0%
CCTTTGCTCTATAATTAGAG+TGG - chr8.1:32366264-32366283 MS.gene017566:CDS 35.0%
CTTCAAACTTGTGATCAACT+TGG + chr8.1:32366194-32366213 None:intergenic 35.0%
GCATATGGATAGCAAATTTG+GGG - chr8.1:32366213-32366232 MS.gene017566:CDS 35.0%
GCTCTATAATTAGAGTGGTT+AGG - chr8.1:32366269-32366288 MS.gene017566:CDS 35.0%
GTGACAAAACTAATGCACAA+GGG - chr8.1:32366385-32366404 MS.gene017566:CDS 35.0%
TACATCAAGCTCCATTCAAA+CGG - chr8.1:32365880-32365899 MS.gene017566:CDS 35.0%
TAGCACAATTAGAGTACATG+AGG - chr8.1:32365817-32365836 MS.gene017566:CDS 35.0%
TATCAATGAGTTGCAATGTG+TGG - chr8.1:32366438-32366457 MS.gene017566:CDS 35.0%
TATGGTGAGAAATCACTTGT+TGG + chr8.1:32365967-32365986 None:intergenic 35.0%
TCATGTACTCTAATTGTGCT+AGG + chr8.1:32365818-32365837 None:intergenic 35.0%
TCTTGTCTAAGGAGAAGAAA+AGG - chr8.1:32366100-32366119 MS.gene017566:CDS 35.0%
TGTGTCTTCATCAAAGTCTA+AGG - chr8.1:32366345-32366364 MS.gene017566:CDS 35.0%
! CTGAAACTTTTCACCAATAG+TGG + chr8.1:32366494-32366513 None:intergenic 35.0%
! GATCACAAGTTTGAAGCATA+TGG - chr8.1:32366198-32366217 MS.gene017566:CDS 35.0%
! TTTTGTCACCAACAACCATT+TGG + chr8.1:32366374-32366393 None:intergenic 35.0%
!! GCAATTGAAAGCATTGAGAA+TGG - chr8.1:32366547-32366566 MS.gene017566:CDS 35.0%
!! TTCAAGTGTTGAAAGAAGTG+TGG - chr8.1:32366126-32366145 MS.gene017566:CDS 35.0%
AATGGAGCTTGATGTAGATG+TGG + chr8.1:32365876-32365895 None:intergenic 40.0%
ACATCAAGCTCCATTCAAAC+GGG - chr8.1:32365881-32365900 MS.gene017566:CDS 40.0%
CAAGTGATTTCTCACCATAG+AGG - chr8.1:32365968-32365987 MS.gene017566:CDS 40.0%
GGATATTTGTGGCATCACTA+GGG - chr8.1:32366036-32366055 MS.gene017566:CDS 40.0%
GGTGACAAAACTAATGCACA+AGG - chr8.1:32366384-32366403 MS.gene017566:CDS 40.0%
GTGCTAGGATGAAATCTAGA+TGG + chr8.1:32365803-32365822 None:intergenic 40.0%
TAAGGCAACCAAATGGTTGT+TGG - chr8.1:32366363-32366382 MS.gene017566:CDS 40.0%
TCTCCTTAGACAAGAGTGAA+GGG + chr8.1:32366095-32366114 None:intergenic 40.0%
TGGATATTTGTGGCATCACT+AGG - chr8.1:32366035-32366054 MS.gene017566:CDS 40.0%
TTCTCCTTAGACAAGAGTGA+AGG + chr8.1:32366096-32366115 None:intergenic 40.0%
! CAAAGTCTAAGGCAACCAAA+TGG - chr8.1:32366356-32366375 MS.gene017566:CDS 40.0%
!! ATTTGGGGTGTCCCAAATTT+TGG - chr8.1:32366228-32366247 MS.gene017566:CDS 40.0%
!! GAAATCACTTGTTGGGTTGA+TGG + chr8.1:32365959-32365978 None:intergenic 40.0%
AAGCCCTTCACTCTTGTCTA+AGG - chr8.1:32366089-32366108 MS.gene017566:CDS 45.0%
ACATGAGAGATTGGAGGCTT+TGG - chr8.1:32366519-32366538 MS.gene017566:CDS 45.0%
AGGTGAGAACTGCATTGAAG+AGG - chr8.1:32365988-32366007 MS.gene017566:CDS 45.0%
CAAGGAAAGACCCGTTTGAA+TGG + chr8.1:32365894-32365913 None:intergenic 45.0%
CAATGCAGTTCTCACCTCTA+TGG + chr8.1:32365985-32366004 None:intergenic 45.0%
! GAACTGCATTGAAGAGGTGT+TGG - chr8.1:32365994-32366013 MS.gene017566:CDS 45.0%
TCAGGCTGCACATGAGAGAT+TGG - chr8.1:32366510-32366529 MS.gene017566:CDS 50.0%
GGCTGCACATGAGAGATTGG+AGG - chr8.1:32366513-32366532 MS.gene017566:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 32365764 32366636 32365764 ID=MS.gene017566
chr8.1 mRNA 32365764 32366636 32365764 ID=MS.gene017566.t1;Parent=MS.gene017566
chr8.1 exon 32365764 32366636 32365764 ID=MS.gene017566.t1.exon1;Parent=MS.gene017566.t1
chr8.1 CDS 32365764 32366636 32365764 ID=cds.MS.gene017566.t1;Parent=MS.gene017566.t1
Gene Sequence

>MS.gene017566

ATGGCAAACAAGTATAGTGTTCGATCAATTAGTTTGCCATCTAGATTTCATCCTAGCACAATTAGAGTACATGAGGAATTGAACAAGCTTAAAACATGGGAAGGAACATCCACATCTACATCAAGCTCCATTCAAACGGGTCTTTCCTTGATTGAAGAATTGTATATTTCATTGGAAGATCTTCTCAACATGCCATCAACCCAACAAGTGATTTCTCACCATAGAGGTGAGAACTGCATTGAAGAGGTGTTGGATAGTTCAATGAGAATTTTGGATATTTGTGGCATCACTAGGGATACAATTCTTCAAATCAAGGAAAATGTTCAAGCCCTTCACTCTTGTCTAAGGAGAAGAAAAGGTGATTCAAGTGTTGAAAGAAGTGTGGAAGAATACAAATTTTTCACAAAAAAGATGAAGAAAAATCTCACCAAGTTGATCACAAGTTTGAAGCATATGGATAGCAAATTTGGGGTGTCCCAAATTTTGGAACTTGATCATCACCTTTGCTCTATAATTAGAGTGGTTAGGGAAGTGATTACAATGAACTTGTCTGTTTTTCAATTCATTTTGTCATTTTTGAATGTGTCTTCATCAAAGTCTAAGGCAACCAAATGGTTGTTGGTGACAAAACTAATGCACAAGGGTGTTATAACATCTCAACATAACTCACAGAATATCAATGAGTTGCAATGTGTGGAAGCTACTTTAAATACCCTTTTAAGTGAATCCACTATTGGTGAAAAGTTTCAGGCTGCACATGAGAGATTGGAGGCTTTGGAGAATGCAATTGAAAGCATTGAGAATGGTTTAGAGAACTTATATAGACACTTAATTAAATTTAGATCCTTCCTCTTGAACATAATCTCTCAATAG
Protein sequence

>MS.gene017566.t1

MANKYSVRSISLPSRFHPSTIRVHEELNKLKTWEGTSTSTSSSIQTGLSLIEELYISLEDLLNMPSTQQVISHHRGENCIEEVLDSSMRILDICGITRDTILQIKENVQALHSCLRRRKGDSSVERSVEEYKFFTKKMKKNLTKLITSLKHMDSKFGVSQILELDHHLCSIIRVVREVITMNLSVFQFILSFLNVSSSKSKATKWLLVTKLMHKGVITSQHNSQNINELQCVEATLNTLLSESTIGEKFQAAHERLEALENAIESIENGLENLYRHLIKFRSFLLNIISQ