AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene28916

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene28916.t1 MTR_8g074420 95.172 290 14 0 1 290 1 290 0.0 539
MS.gene28916.t1 MTR_8g074450 81.724 290 53 0 1 290 1 290 6.20e-171 474
MS.gene28916.t1 MTR_8g074510 81.379 290 52 1 1 290 1 288 9.61e-167 464
MS.gene28916.t1 MTR_5g023350 69.097 288 83 2 2 289 3 284 1.53e-132 377
MS.gene28916.t1 MTR_5g023600 68.750 288 84 2 2 289 3 284 5.15e-132 376
MS.gene28916.t1 MTR_5g023370 67.708 288 87 2 2 289 3 284 1.35e-129 370
MS.gene28916.t1 MTR_5g023340 67.361 288 88 2 2 289 3 284 5.47e-129 368
MS.gene28916.t1 MTR_5g023390 66.667 288 90 2 2 289 3 284 8.02e-129 368
MS.gene28916.t1 MTR_5g023520 65.517 290 95 1 1 290 1 285 1.63e-128 367
MS.gene28916.t1 MTR_5g023550 65.744 289 93 2 1 289 1 283 1.01e-125 360
MS.gene28916.t1 MTR_5g023320 66.897 290 86 4 2 290 3 283 4.32e-125 358
MS.gene28916.t1 MTR_5g023530 64.948 291 94 4 1 289 1 285 9.87e-123 352
MS.gene28916.t1 MTR_5g023470 64.261 291 96 4 1 289 1 285 6.79e-121 348
MS.gene28916.t1 MTR_5g023580 65.035 286 98 1 2 287 3 286 1.29e-120 350
MS.gene28916.t1 MTR_8g074530 47.586 290 148 3 2 289 17 304 8.19e-79 241
MS.gene28916.t1 MTR_5g023460 61.979 192 63 2 99 290 11 192 1.91e-76 231
MS.gene28916.t1 MTR_5g023290 40.940 298 164 4 4 289 11 308 3.79e-64 204
MS.gene28916.t1 MTR_5g023650 33.106 293 184 4 7 289 14 304 2.24e-44 153
MS.gene28916.t1 MTR_8g074380 32.990 291 163 5 7 288 14 281 6.36e-42 147
MS.gene28916.t1 MTR_4g070530 34.028 288 179 5 7 289 14 295 1.65e-39 140
MS.gene28916.t1 MTR_5g023410 69.000 100 31 0 1 100 1 100 4.77e-38 134
MS.gene28916.t1 MTR_4g070570 31.164 292 190 6 5 289 15 302 8.07e-38 135
MS.gene28916.t1 MTR_4g070540 31.119 286 190 4 7 289 14 295 4.68e-36 131
MS.gene28916.t1 MTR_4g070590 33.904 292 178 7 7 289 15 300 3.44e-34 126
MS.gene28916.t1 MTR_3g116920 31.849 292 186 8 5 289 12 297 9.53e-31 117
MS.gene28916.t1 MTR_3g116950 33.562 292 179 11 5 289 12 295 9.74e-31 117
MS.gene28916.t1 MTR_3g115150 26.910 301 188 9 7 289 29 315 3.07e-23 97.4
MS.gene28916.t1 MTR_1g037820 29.167 240 146 6 51 289 9 225 3.97e-20 87.0
MS.gene28916.t1 MTR_5g023540 47.761 67 31 1 165 231 4 66 6.99e-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.gene28916.t1 AT4G35690 36.949 295 165 7 1 289 4 283 8.81e-51 169
MS.gene28916.t1 AT2G17680 37.821 312 149 11 1 290 4 292 8.09e-45 154
MS.gene28916.t1 AT4G35710 35.906 298 166 8 1 289 1 282 7.00e-42 145
MS.gene28916.t1 AT2G17080 35.069 288 160 6 1 288 1 261 1.88e-40 141
MS.gene28916.t1 AT2G17070 34.965 286 159 6 1 286 1 259 7.73e-37 132
MS.gene28916.t1 AT4G35200 36.177 293 141 11 1 287 1 253 2.11e-34 125
MS.gene28916.t1 AT4G35210 33.333 288 153 9 1 287 1 250 3.47e-31 117
MS.gene28916.t1 AT4G35660 32.203 295 165 7 7 289 16 287 1.37e-30 116
MS.gene28916.t1 AT4G35720 31.761 318 177 9 5 289 14 324 1.74e-28 111
MS.gene28916.t1 AT4G35680 28.523 298 194 7 6 289 17 309 4.47e-23 97.1
MS.gene28916.t1 AT3G51400 30.169 295 179 9 1 289 1 274 2.63e-19 85.9
MS.gene28916.t1 AT1G76240 29.153 295 177 9 8 289 32 307 5.99e-19 85.5
MS.gene28916.t1 AT1G76210 27.111 225 141 5 65 289 24 225 5.44e-15 73.2
MS.gene28916.t1 AT3G51410 29.965 287 151 9 7 289 39 279 2.91e-14 72.0

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 8.2:-30367615 MS.gene28916:CDS
ATTTGGGGTGTCCCAAATTT+TGG 0.139964 8.2:-30367598 MS.gene28916:CDS
GATGATCAAGTTCCAAAATT+TGG 0.152831 8.2:+30367586 None:intergenic
CACTATTGGTGAAAAGTTTC+AGG 0.207067 8.2:-30367334 MS.gene28916:CDS
GGATAGTTCAATGAGAATTT+TGG 0.221029 8.2:-30367811 MS.gene28916:CDS
CAATAGTGGATTCACTTAAA+AGG 0.237225 8.2:+30367349 None:intergenic
CAATGCATTTCTCACCTCTA+TGG 0.309012 8.2:+30367844 None:intergenic
ATGATCAAGTTCCAAAATTT+GGG 0.315958 8.2:+30367587 None:intergenic
GCTCTATAATTAGAGTGGTT+AGG 0.346875 8.2:-30367557 MS.gene28916:CDS
AGCATATGGATAGCAAATTT+GGG 0.355925 8.2:-30367614 MS.gene28916:CDS
AAGCCCTTCACTCTTGTCTA+AGG 0.365459 8.2:-30367737 MS.gene28916:CDS
TGAAGAATTGTATATTTCAT+TGG 0.371711 8.2:-30367910 MS.gene28916:CDS
GATCACAAGTTTGAAGCATA+TGG 0.388619 8.2:-30367628 MS.gene28916:CDS
CTCTATAATTAGAGTGGTTA+GGG 0.390882 8.2:-30367556 MS.gene28916:CDS
GAAATCACTTGTTGGGTTGA+TGG 0.405774 8.2:+30367870 None:intergenic
ACATGAGAGATTGGAGGCTT+TGG 0.408989 8.2:-30367307 MS.gene28916:CDS
TACATCAAGCTCCATTCAAA+CGG 0.450991 8.2:-30367946 MS.gene28916:CDS
TCAGGCTGCACATGAGAGAT+TGG 0.452007 8.2:-30367316 MS.gene28916:CDS
CAAGGAAAGACCCGTTTGAA+TGG 0.453573 8.2:+30367935 None:intergenic
TGTGTCTTCATCAAAGTCTA+AGG 0.455083 8.2:-30367481 MS.gene28916:CDS
TGGATATTTGTGGCATCACT+AGG 0.456088 8.2:-30367791 MS.gene28916:CDS
AATAGTGGATTCACTTAAAA+GGG 0.456111 8.2:+30367350 None:intergenic
GCAATTGAAAGCATTGAGAA+TGG 0.463409 8.2:-30367279 MS.gene28916:CDS
ATGGTGAGAAATCACTTGTT+GGG 0.479630 8.2:+30367863 None:intergenic
TATGGTGAGAAATCACTTGT+TGG 0.484011 8.2:+30367862 None:intergenic
AATATACAATTCTTCAATCA+AGG 0.493373 8.2:+30367917 None:intergenic
GTGCTAGGATGAAATCTAGA+TGG 0.495612 8.2:+30368026 None:intergenic
GGATACAATTCTTCAAATCA+AGG 0.500801 8.2:-30367769 MS.gene28916:CDS
TCTTGTCTAAGGAGAAGAAA+AGG 0.505857 8.2:-30367726 MS.gene28916:CDS
ACATCAAGCTCCATTCAAAC+GGG 0.526245 8.2:-30367945 MS.gene28916:CDS
AGAGATTATGTTCAAGAGGA+AGG 0.527971 8.2:+30367218 None:intergenic
TTCTCCTTAGACAAGAGTGA+AGG 0.531189 8.2:+30367733 None:intergenic
TAAGGCAACCAAATGGTTGT+TGG 0.536702 8.2:-30367463 MS.gene28916:CDS
TCATGTACTCTAATTGTGCT+AGG 0.541777 8.2:+30368011 None:intergenic
GGCTGCACATGAGAGATTGG+AGG 0.542067 8.2:-30367313 MS.gene28916:CDS
CTTCAAACTTGTGATCAACT+TGG 0.545317 8.2:+30367635 None:intergenic
ATTGAGAGATTATGTTCAAG+AGG 0.553521 8.2:+30367214 None:intergenic
GAAATGCATTGAAGAGGTGT+TGG 0.557821 8.2:-30367832 MS.gene28916:CDS
TCTCCTTAGACAAGAGTGAA+GGG 0.564139 8.2:+30367734 None:intergenic
CCTTTGCTCTATAATTAGAG+TGG 0.572418 8.2:-30367562 MS.gene28916:CDS
CCACTCTAATTATAGAGCAA+AGG 0.574371 8.2:+30367562 None:intergenic
CAAAGTCTAAGGCAACCAAA+TGG 0.575102 8.2:-30367470 MS.gene28916:CDS
GGATATTTGTGGCATCACTA+GGG 0.577026 8.2:-30367790 MS.gene28916:CDS
AACAAGCTTAAAACATGGGA+AGG 0.577507 8.2:-30367981 MS.gene28916:CDS
AGGTGAGAAATGCATTGAAG+AGG 0.582191 8.2:-30367838 MS.gene28916:CDS
ATTGAACAAGCTTAAAACAT+GGG 0.608973 8.2:-30367985 MS.gene28916:CDS
AATTGAACAAGCTTAAAACA+TGG 0.616486 8.2:-30367986 MS.gene28916:CDS
AATGGAGCTTGATGTAGATG+TGG 0.620161 8.2:+30367953 None:intergenic
TTCAAGTGTTGAAAGAAGTG+TGG 0.622624 8.2:-30367700 MS.gene28916:CDS
TAGCACAATTAGAGTACATG+AGG 0.624704 8.2:-30368009 MS.gene28916:CDS
CAAGTGATTTCTCACCATAG+AGG 0.629127 8.2:-30367858 MS.gene28916:CDS
TATCAATGAGTTGCAATGTG+TGG 0.636179 8.2:-30367388 MS.gene28916:CDS
GCATATGGATAGCAAATTTG+GGG 0.675116 8.2:-30367613 MS.gene28916:CDS
GGTGACAAAACTAATGCACA+AGG 0.706638 8.2:-30367442 MS.gene28916:CDS
GTGACAAAACTAATGCACAA+GGG 0.759874 8.2:-30367441 MS.gene28916:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATATACAATTCTTCAATCA+AGG + chr8.2:30367360-30367379 None:intergenic 20.0%
!! TGAAGAATTGTATATTTCAT+TGG - chr8.2:30367364-30367383 MS.gene28916:CDS 20.0%
! AATTGAACAAGCTTAAAACA+TGG - chr8.2:30367288-30367307 MS.gene28916:CDS 25.0%
! ATGATCAAGTTCCAAAATTT+GGG + chr8.2:30367690-30367709 None:intergenic 25.0%
! ATTGAACAAGCTTAAAACAT+GGG - chr8.2:30367289-30367308 MS.gene28916:CDS 25.0%
!! ATGAGAATTTTGGATATTTG+TGG - chr8.2:30367473-30367492 MS.gene28916:CDS 25.0%
!!! AATAGTGGATTCACTTAAAA+GGG + chr8.2:30367927-30367946 None:intergenic 25.0%
AAGCATATGGATAGCAAATT+TGG - chr8.2:30367659-30367678 MS.gene28916:CDS 30.0%
AGCATATGGATAGCAAATTT+GGG - chr8.2:30367660-30367679 MS.gene28916:CDS 30.0%
ATTGAGAGATTATGTTCAAG+AGG + chr8.2:30368063-30368082 None:intergenic 30.0%
CTCTATAATTAGAGTGGTTA+GGG - chr8.2:30367718-30367737 MS.gene28916:CDS 30.0%
GATGATCAAGTTCCAAAATT+TGG + chr8.2:30367691-30367710 None:intergenic 30.0%
GGATACAATTCTTCAAATCA+AGG - chr8.2:30367505-30367524 MS.gene28916:CDS 30.0%
! GGATAGTTCAATGAGAATTT+TGG - chr8.2:30367463-30367482 MS.gene28916:CDS 30.0%
!! CAATAGTGGATTCACTTAAA+AGG + chr8.2:30367928-30367947 None:intergenic 30.0%
!! CTTTTAAGTGAATCCACTAT+TGG - chr8.2:30367926-30367945 MS.gene28916:CDS 30.0%
AACAAGCTTAAAACATGGGA+AGG - chr8.2:30367293-30367312 MS.gene28916:CDS 35.0%
AGAGATTATGTTCAAGAGGA+AGG + chr8.2:30368059-30368078 None:intergenic 35.0%
ATGGTGAGAAATCACTTGTT+GGG + chr8.2:30367414-30367433 None:intergenic 35.0%
CACTATTGGTGAAAAGTTTC+AGG - chr8.2:30367940-30367959 MS.gene28916:CDS 35.0%
CCACTCTAATTATAGAGCAA+AGG + chr8.2:30367715-30367734 None:intergenic 35.0%
CCTTTGCTCTATAATTAGAG+TGG - chr8.2:30367712-30367731 MS.gene28916:CDS 35.0%
CTTCAAACTTGTGATCAACT+TGG + chr8.2:30367642-30367661 None:intergenic 35.0%
GCATATGGATAGCAAATTTG+GGG - chr8.2:30367661-30367680 MS.gene28916:CDS 35.0%
GCTCTATAATTAGAGTGGTT+AGG - chr8.2:30367717-30367736 MS.gene28916:CDS 35.0%
GTGACAAAACTAATGCACAA+GGG - chr8.2:30367833-30367852 MS.gene28916:CDS 35.0%
TACATCAAGCTCCATTCAAA+CGG - chr8.2:30367328-30367347 MS.gene28916:CDS 35.0%
TAGCACAATTAGAGTACATG+AGG - chr8.2:30367265-30367284 MS.gene28916:CDS 35.0%
TATCAATGAGTTGCAATGTG+TGG - chr8.2:30367886-30367905 MS.gene28916:CDS 35.0%
TATGGTGAGAAATCACTTGT+TGG + chr8.2:30367415-30367434 None:intergenic 35.0%
TCATGTACTCTAATTGTGCT+AGG + chr8.2:30367266-30367285 None:intergenic 35.0%
TCTTGTCTAAGGAGAAGAAA+AGG - chr8.2:30367548-30367567 MS.gene28916:CDS 35.0%
TGTGTCTTCATCAAAGTCTA+AGG - chr8.2:30367793-30367812 MS.gene28916:CDS 35.0%
! CTGAAACTTTTCACCAATAG+TGG + chr8.2:30367942-30367961 None:intergenic 35.0%
! GATCACAAGTTTGAAGCATA+TGG - chr8.2:30367646-30367665 MS.gene28916:CDS 35.0%
! TTTTGTCACCAACAACCATT+TGG + chr8.2:30367822-30367841 None:intergenic 35.0%
!! GCAATTGAAAGCATTGAGAA+TGG - chr8.2:30367995-30368014 MS.gene28916:CDS 35.0%
!! TTCAAGTGTTGAAAGAAGTG+TGG - chr8.2:30367574-30367593 MS.gene28916:CDS 35.0%
AATGGAGCTTGATGTAGATG+TGG + chr8.2:30367324-30367343 None:intergenic 40.0%
ACATCAAGCTCCATTCAAAC+GGG - chr8.2:30367329-30367348 MS.gene28916:CDS 40.0%
AGGTGAGAAATGCATTGAAG+AGG - chr8.2:30367436-30367455 MS.gene28916:CDS 40.0%
CAAGTGATTTCTCACCATAG+AGG - chr8.2:30367416-30367435 MS.gene28916:CDS 40.0%
CAATGCATTTCTCACCTCTA+TGG + chr8.2:30367433-30367452 None:intergenic 40.0%
GGATATTTGTGGCATCACTA+GGG - chr8.2:30367484-30367503 MS.gene28916:CDS 40.0%
GGTGACAAAACTAATGCACA+AGG - chr8.2:30367832-30367851 MS.gene28916:CDS 40.0%
GTGCTAGGATGAAATCTAGA+TGG + chr8.2:30367251-30367270 None:intergenic 40.0%
TAAGGCAACCAAATGGTTGT+TGG - chr8.2:30367811-30367830 MS.gene28916:CDS 40.0%
TCTCCTTAGACAAGAGTGAA+GGG + chr8.2:30367543-30367562 None:intergenic 40.0%
TGGATATTTGTGGCATCACT+AGG - chr8.2:30367483-30367502 MS.gene28916:CDS 40.0%
TTCTCCTTAGACAAGAGTGA+AGG + chr8.2:30367544-30367563 None:intergenic 40.0%
! CAAAGTCTAAGGCAACCAAA+TGG - chr8.2:30367804-30367823 MS.gene28916:CDS 40.0%
! GAAATGCATTGAAGAGGTGT+TGG - chr8.2:30367442-30367461 MS.gene28916:CDS 40.0%
!! ATTTGGGGTGTCCCAAATTT+TGG - chr8.2:30367676-30367695 MS.gene28916:CDS 40.0%
!! GAAATCACTTGTTGGGTTGA+TGG + chr8.2:30367407-30367426 None:intergenic 40.0%
AAGCCCTTCACTCTTGTCTA+AGG - chr8.2:30367537-30367556 MS.gene28916:CDS 45.0%
ACATGAGAGATTGGAGGCTT+TGG - chr8.2:30367967-30367986 MS.gene28916:CDS 45.0%
CAAGGAAAGACCCGTTTGAA+TGG + chr8.2:30367342-30367361 None:intergenic 45.0%
TCAGGCTGCACATGAGAGAT+TGG - chr8.2:30367958-30367977 MS.gene28916:CDS 50.0%
GGCTGCACATGAGAGATTGG+AGG - chr8.2:30367961-30367980 MS.gene28916:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 30367212 30368084 30367212 ID=MS.gene28916
chr8.2 mRNA 30367212 30368084 30367212 ID=MS.gene28916.t1;Parent=MS.gene28916
chr8.2 exon 30367212 30368084 30367212 ID=MS.gene28916.t1.exon1;Parent=MS.gene28916.t1
chr8.2 CDS 30367212 30368084 30367212 ID=cds.MS.gene28916.t1;Parent=MS.gene28916.t1
Gene Sequence

>MS.gene28916

ATGGCAAACAAGTATAGTGTTCGATCAATTAGTTTGCCATCTAGATTTCATCCTAGCACAATTAGAGTACATGAGGAATTGAACAAGCTTAAAACATGGGAAGGAACATCCACATCTACATCAAGCTCCATTCAAACGGGTCTTTCCTTGATTGAAGAATTGTATATTTCATTGGAAGATCTTCTCAACATGCCATCAACCCAACAAGTGATTTCTCACCATAGAGGTGAGAAATGCATTGAAGAGGTGTTGGATAGTTCAATGAGAATTTTGGATATTTGTGGCATCACTAGGGATACAATTCTTCAAATCAAGGAAAATGTTCAAGCCCTTCACTCTTGTCTAAGGAGAAGAAAAGGTGATTCAAGTGTTGAAAGAAGTGTGGAAGAATACAAATTTTTCACAAAAAAGATGAAGAAAAATCTCACCAAGTTGATCACAAGTTTGAAGCATATGGATAGCAAATTTGGGGTGTCCCAAATTTTGGAACTTGATCATCACCTTTGCTCTATAATTAGAGTGGTTAGGGAAGTGATTACAATGAACTTGTCTGTTTTTCAATTCATTTTGTCATTTTTGAATGTGTCTTCATCAAAGTCTAAGGCAACCAAATGGTTGTTGGTGACAAAACTAATGCACAAGGGTGTTATAACATCTCAACATAACTCACAGAATATCAATGAGTTGCAATGTGTGGAAGCTACTTTAAATACCCTTTTAAGTGAATCCACTATTGGTGAAAAGTTTCAGGCTGCACATGAGAGATTGGAGGCTTTGGAGAATGCAATTGAAAGCATTGAGAATGGTTTAGAGAACTTATATAGACACTTAATTAAATTTAGATCCTTCCTCTTGAACATAATCTCTCAATAG
Protein sequence

>MS.gene28916.t1

MANKYSVRSISLPSRFHPSTIRVHEELNKLKTWEGTSTSTSSSIQTGLSLIEELYISLEDLLNMPSTQQVISHHRGEKCIEEVLDSSMRILDICGITRDTILQIKENVQALHSCLRRRKGDSSVERSVEEYKFFTKKMKKNLTKLITSLKHMDSKFGVSQILELDHHLCSIIRVVREVITMNLSVFQFILSFLNVSSSKSKATKWLLVTKLMHKGVITSQHNSQNINELQCVEATLNTLLSESTIGEKFQAAHERLEALENAIESIENGLENLYRHLIKFRSFLLNIISQ