AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene017568

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017568.t1 MTR_8g074510 95.139 288 14 0 1 288 1 288 0.0 554
MS.gene017568.t1 MTR_8g074450 86.207 290 38 1 1 288 1 290 0.0 504
MS.gene017568.t1 MTR_8g074420 83.103 290 47 1 1 288 1 290 4.38e-167 464
MS.gene017568.t1 MTR_5g023550 65.744 289 91 3 1 287 1 283 2.72e-128 366
MS.gene017568.t1 MTR_5g023320 67.247 287 82 5 5 288 6 283 2.61e-127 363
MS.gene017568.t1 MTR_5g023370 66.316 285 88 3 5 287 6 284 3.94e-127 363
MS.gene017568.t1 MTR_5g023600 66.434 286 88 3 4 287 5 284 4.40e-127 363
MS.gene017568.t1 MTR_5g023390 65.965 285 89 3 5 287 6 284 4.49e-127 363
MS.gene017568.t1 MTR_5g023520 64.138 290 97 2 1 288 1 285 4.63e-127 363
MS.gene017568.t1 MTR_5g023340 65.614 285 90 3 5 287 6 284 1.22e-125 360
MS.gene017568.t1 MTR_5g023350 65.385 286 91 3 4 287 5 284 4.07e-125 358
MS.gene017568.t1 MTR_5g023530 64.111 287 94 4 4 287 5 285 7.76e-123 352
MS.gene017568.t1 MTR_5g023470 63.066 287 97 4 4 287 5 285 1.03e-120 347
MS.gene017568.t1 MTR_5g023580 63.604 283 99 2 5 285 6 286 1.26e-116 340
MS.gene017568.t1 MTR_8g074530 46.528 288 148 4 4 287 19 304 3.41e-76 234
MS.gene017568.t1 MTR_5g023460 63.021 192 61 3 97 288 11 192 1.10e-75 229
MS.gene017568.t1 MTR_5g023290 40.268 298 164 4 4 287 11 308 4.01e-65 206
MS.gene017568.t1 MTR_4g070530 34.266 286 181 4 6 287 13 295 1.26e-45 155
MS.gene017568.t1 MTR_5g023650 33.447 293 181 4 7 287 14 304 1.85e-43 150
MS.gene017568.t1 MTR_8g074380 31.724 290 166 5 7 286 14 281 2.72e-40 143
MS.gene017568.t1 MTR_4g070570 28.720 289 199 3 5 287 15 302 4.79e-39 139
MS.gene017568.t1 MTR_5g023410 66.000 100 32 1 1 98 1 100 5.75e-39 136
MS.gene017568.t1 MTR_4g070540 32.292 288 186 5 6 288 13 296 7.83e-39 138
MS.gene017568.t1 MTR_4g070590 33.447 293 178 7 6 287 14 300 5.20e-38 136
MS.gene017568.t1 MTR_3g116920 32.872 289 185 7 5 287 12 297 1.62e-37 135
MS.gene017568.t1 MTR_3g116950 33.904 292 176 9 5 287 12 295 2.14e-36 132
MS.gene017568.t1 MTR_3g115150 27.451 306 186 9 3 287 25 315 1.71e-26 106
MS.gene017568.t1 MTR_1g037820 29.876 241 143 5 49 287 9 225 7.81e-25 99.8
MS.gene017568.t1 MTR_5g023540 48.438 64 29 1 163 226 4 63 5.34e-12 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.gene017568.t1 AT4G35690 35.570 298 163 6 1 287 4 283 7.92e-54 177
MS.gene017568.t1 AT2G17680 38.436 307 152 8 1 288 4 292 8.89e-50 166
MS.gene017568.t1 AT2G17080 38.542 288 148 8 1 286 1 261 5.30e-46 156
MS.gene017568.t1 AT4G35710 36.519 293 166 7 1 287 4 282 2.93e-45 154
MS.gene017568.t1 AT4G35200 38.246 285 144 11 1 285 1 253 4.07e-43 148
MS.gene017568.t1 AT2G17070 38.112 286 148 9 1 284 1 259 7.04e-42 145
MS.gene017568.t1 AT4G35210 35.439 285 149 9 1 285 1 250 9.42e-39 137
MS.gene017568.t1 AT4G35660 31.834 289 172 8 7 287 16 287 7.21e-28 109
MS.gene017568.t1 AT4G35720 32.063 315 178 10 5 287 14 324 1.62e-26 106
MS.gene017568.t1 AT1G76240 27.551 294 193 6 3 288 27 308 7.80e-22 93.2
MS.gene017568.t1 AT3G51400 31.058 293 177 10 1 287 1 274 5.28e-21 90.5
MS.gene017568.t1 AT4G35680 28.239 301 187 8 7 287 18 309 6.92e-19 85.1
MS.gene017568.t1 AT3G51410 30.142 282 155 6 7 287 39 279 8.40e-17 79.0
MS.gene017568.t1 AT1G76210 26.754 228 138 5 63 287 24 225 1.16e-15 74.7

Find 42 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTAGTACCTTCACTTAAA+AGG 0.153684 8.1:+32337845 None:intergenic
GGATAGTTCAATGAGAATTT+TGG 0.221029 8.1:-32338307 MS.gene017568:CDS
AATATATAAATCATCTATTA+AGG 0.302191 8.1:+32338413 None:intergenic
CAATGCATTTCTCACCTCTA+TGG 0.309012 8.1:+32338340 None:intergenic
AATTTGCATGTCTTCAACTT+TGG 0.327447 8.1:-32338094 MS.gene017568:CDS
AAGCCCTTCACTCTTGTCTA+AGG 0.365459 8.1:-32338233 MS.gene017568:CDS
AGATGATTTATATATTTCAT+TGG 0.368321 8.1:-32338406 MS.gene017568:CDS
TGAAAGTATTGAGAATGGTT+TGG 0.376420 8.1:-32337770 MS.gene017568:CDS
ATGGTTTGGAGAACTTATTT+AGG 0.391036 8.1:-32337756 MS.gene017568:CDS
ACACTCTAATCAAAGAATAA+AGG 0.396201 8.1:+32338058 None:intergenic
ACATGAAAGATTGGAGGCTT+TGG 0.416323 8.1:-32337803 MS.gene017568:CDS
ATTAGTACCTTCACTTAAAA+GGG 0.427283 8.1:+32337846 None:intergenic
GATCACATCTTTGAAGCAAA+TGG 0.443039 8.1:-32338124 MS.gene017568:CDS
TGGATATTTGTGGCATCACT+AGG 0.456088 8.1:-32338287 MS.gene017568:CDS
GCAATTGAAAGTATTGAGAA+TGG 0.456284 8.1:-32337775 MS.gene017568:CDS
ATGGTGAGAAATCACTTGTT+GGG 0.479630 8.1:+32338359 None:intergenic
GCAGGCTGCACATGAAAGAT+TGG 0.481060 8.1:-32337812 MS.gene017568:CDS
TATGGTGAGAAATCACTTGT+TGG 0.484011 8.1:+32338358 None:intergenic
TAAGGAAAGACCACTATGAA+TGG 0.495456 8.1:+32338431 None:intergenic
GGATACAATTCTTCAAATCA+AGG 0.500801 8.1:-32338265 MS.gene017568:CDS
TCTTGTCTAAGGAGAAGAAA+AGG 0.505857 8.1:-32338222 MS.gene017568:CDS
GTGCTAGGATGAGATCTAGA+AGG 0.513144 8.1:+32338516 None:intergenic
TTCTCCTTAGACAAGAGTGA+AGG 0.531189 8.1:+32338229 None:intergenic
TCATCTACTCTAATTGTGCT+AGG 0.541777 8.1:+32338501 None:intergenic
GAAATGCATTGAAGAGGTGT+TGG 0.557821 8.1:-32338328 MS.gene017568:CDS
GGCTGCACATGAAAGATTGG+AGG 0.562732 8.1:-32337809 MS.gene017568:CDS
TCTCCTTAGACAAGAGTGAA+GGG 0.564139 8.1:+32338230 None:intergenic
GGATATTTGTGGCATCACTA+GGG 0.577026 8.1:-32338286 MS.gene017568:CDS
AACAAGCTCAAGACATGGGA+AGG 0.580057 8.1:-32338471 MS.gene017568:CDS
AGGTGAGAAATGCATTGAAG+AGG 0.582191 8.1:-32338334 MS.gene017568:CDS
TAGCACAATTAGAGTAGATG+AGG 0.604276 8.1:-32338499 MS.gene017568:CDS
TTTAGCAACAAATTTCCACT+TGG 0.605269 8.1:+32337951 None:intergenic
TACTAATGGAGAAAACATGC+AGG 0.606065 8.1:-32337830 MS.gene017568:CDS
ATTGGATGATCTTCTCAACA+TGG 0.611714 8.1:-32338388 MS.gene017568:CDS
AATTGAACAAGCTCAAGACA+TGG 0.618716 8.1:-32338476 MS.gene017568:CDS
ACATCATGTTCCATTCATAG+TGG 0.619690 8.1:-32338441 MS.gene017568:CDS
CAAGTGATTTCTCACCATAG+AGG 0.629127 8.1:-32338354 MS.gene017568:CDS
ATTGAACAAGCTCAAGACAT+GGG 0.630590 8.1:-32338475 MS.gene017568:CDS
GTTGCTAAAATGATGCACAA+AGG 0.639952 8.1:-32337937 MS.gene017568:CDS
TTCAAGTGTTGAAAGAAGTG+TGG 0.668403 8.1:-32338196 MS.gene017568:CDS
CAAAGTCAAAGACAACCAAG+TGG 0.668953 8.1:-32337966 MS.gene017568:CDS
AACATGATATTTGATTGCCA+TGG 0.672115 8.1:+32338554 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATATATAAATCATCTATTA+AGG + chr8.1:32337850-32337869 None:intergenic 10.0%
!! AGATGATTTATATATTTCAT+TGG - chr8.1:32337854-32337873 MS.gene017568:CDS 15.0%
! ACACTCTAATCAAAGAATAA+AGG + chr8.1:32338205-32338224 None:intergenic 25.0%
! ATTAGTACCTTCACTTAAAA+GGG + chr8.1:32338417-32338436 None:intergenic 25.0%
!! ATGAGAATTTTGGATATTTG+TGG - chr8.1:32337963-32337982 MS.gene017568:CDS 25.0%
AATTTGCATGTCTTCAACTT+TGG - chr8.1:32338166-32338185 MS.gene017568:CDS 30.0%
CATTAGTACCTTCACTTAAA+AGG + chr8.1:32338418-32338437 None:intergenic 30.0%
GGATACAATTCTTCAAATCA+AGG - chr8.1:32337995-32338014 MS.gene017568:CDS 30.0%
TTTAGCAACAAATTTCCACT+TGG + chr8.1:32338312-32338331 None:intergenic 30.0%
! ATGGTTTGGAGAACTTATTT+AGG - chr8.1:32338504-32338523 MS.gene017568:CDS 30.0%
! GGATAGTTCAATGAGAATTT+TGG - chr8.1:32337953-32337972 MS.gene017568:CDS 30.0%
!! GCAATTGAAAGTATTGAGAA+TGG - chr8.1:32338485-32338504 MS.gene017568:CDS 30.0%
!! TGAAAGTATTGAGAATGGTT+TGG - chr8.1:32338490-32338509 MS.gene017568:CDS 30.0%
!! TTAAACACCCTTTTAAGTGA+AGG - chr8.1:32338407-32338426 MS.gene017568:CDS 30.0%
!!! CTTTTAAGTGAAGGTACTAA+TGG - chr8.1:32338416-32338435 MS.gene017568:CDS 30.0%
AATTGAACAAGCTCAAGACA+TGG - chr8.1:32337784-32337803 MS.gene017568:CDS 35.0%
ACATCATGTTCCATTCATAG+TGG - chr8.1:32337819-32337838 MS.gene017568:CDS 35.0%
ATGGTGAGAAATCACTTGTT+GGG + chr8.1:32337904-32337923 None:intergenic 35.0%
ATTGAACAAGCTCAAGACAT+GGG - chr8.1:32337785-32337804 MS.gene017568:CDS 35.0%
ATTGGATGATCTTCTCAACA+TGG - chr8.1:32337872-32337891 MS.gene017568:CDS 35.0%
GTTGCTAAAATGATGCACAA+AGG - chr8.1:32338323-32338342 MS.gene017568:CDS 35.0%
TAAGGAAAGACCACTATGAA+TGG + chr8.1:32337832-32337851 None:intergenic 35.0%
TACTAATGGAGAAAACATGC+AGG - chr8.1:32338430-32338449 MS.gene017568:CDS 35.0%
TAGCACAATTAGAGTAGATG+AGG - chr8.1:32337761-32337780 MS.gene017568:CDS 35.0%
TATGGTGAGAAATCACTTGT+TGG + chr8.1:32337905-32337924 None:intergenic 35.0%
TCATCTACTCTAATTGTGCT+AGG + chr8.1:32337762-32337781 None:intergenic 35.0%
TCTTGTCTAAGGAGAAGAAA+AGG - chr8.1:32338038-32338057 MS.gene017568:CDS 35.0%
!! GATCACATCTTTGAAGCAAA+TGG - chr8.1:32338136-32338155 MS.gene017568:CDS 35.0%
!! TTCAAGTGTTGAAAGAAGTG+TGG - chr8.1:32338064-32338083 MS.gene017568:CDS 35.0%
ACATGAAAGATTGGAGGCTT+TGG - chr8.1:32338457-32338476 MS.gene017568:CDS 40.0%
AGGTGAGAAATGCATTGAAG+AGG - chr8.1:32337926-32337945 MS.gene017568:CDS 40.0%
CAAAGTCAAAGACAACCAAG+TGG - chr8.1:32338294-32338313 MS.gene017568:CDS 40.0%
CAAGTGATTTCTCACCATAG+AGG - chr8.1:32337906-32337925 MS.gene017568:CDS 40.0%
CAATGCATTTCTCACCTCTA+TGG + chr8.1:32337923-32337942 None:intergenic 40.0%
GGATATTTGTGGCATCACTA+GGG - chr8.1:32337974-32337993 MS.gene017568:CDS 40.0%
TCTCCTTAGACAAGAGTGAA+GGG + chr8.1:32338033-32338052 None:intergenic 40.0%
TGGATATTTGTGGCATCACT+AGG - chr8.1:32337973-32337992 MS.gene017568:CDS 40.0%
TTCTCCTTAGACAAGAGTGA+AGG + chr8.1:32338034-32338053 None:intergenic 40.0%
! GAAATGCATTGAAGAGGTGT+TGG - chr8.1:32337932-32337951 MS.gene017568:CDS 40.0%
AACAAGCTCAAGACATGGGA+AGG - chr8.1:32337789-32337808 MS.gene017568:CDS 45.0%
AAGCCCTTCACTCTTGTCTA+AGG - chr8.1:32338027-32338046 MS.gene017568:CDS 45.0%
GTGCTAGGATGAGATCTAGA+AGG + chr8.1:32337747-32337766 None:intergenic 45.0%
GCAGGCTGCACATGAAAGAT+TGG - chr8.1:32338448-32338467 MS.gene017568:CDS 50.0%
GGCTGCACATGAAAGATTGG+AGG - chr8.1:32338451-32338470 MS.gene017568:CDS 50.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 32337708 32338574 32337708 ID=MS.gene017568
chr8.1 mRNA 32337708 32338574 32337708 ID=MS.gene017568.t1;Parent=MS.gene017568
chr8.1 exon 32337708 32338574 32337708 ID=MS.gene017568.t1.exon1;Parent=MS.gene017568.t1
chr8.1 CDS 32337708 32338574 32337708 ID=cds.MS.gene017568.t1;Parent=MS.gene017568.t1
Gene Sequence

>MS.gene017568

ATGGCAATCAAATATCATGTTCGTTCAATTAGTTTGCCTTCTAGATCTCATCCTAGCACAATTAGAGTAGATGAGGAATTGAACAAGCTCAAGACATGGGAAGGAACATCTACATCATGTTCCATTCATAGTGGTCTTTCCTTAATAGATGATTTATATATTTCATTGGATGATCTTCTCAACATGGCATCAACCCAACAAGTGATTTCTCACCATAGAGGTGAGAAATGCATTGAAGAGGTGTTGGATAGTTCAATGAGAATTTTGGATATTTGTGGCATCACTAGGGATACAATTCTTCAAATCAAGGAAAATGTTCAAGCCCTTCACTCTTGTCTAAGGAGAAGAAAAGGTGATTCAAGTGTTGAAAGAAGTGTGGTAGAATACAAATTCTTCACAAAAAAGATGAAAAAAAATGTCAACAAGTTGATCACATCTTTGAAGCAAATGGATAGTAAAATTTGCATGTCTTCAACTTTGGAACTTGATCATCACCTTTATTCTTTGATTAGAGTGTTTAAAGAAGTCATTGCAATGAATTTGTCTATTTTTCAAATCATTTTGTCATTCTTGACTATGTCTTCATCAAAGTCAAAGACAACCAAGTGGAAATTTGTTGCTAAAATGATGCACAAAGGAGTCATAACATGTGAAGATAACTCAGATAATGTCAATGAGTTTTTGTGTGTTGAAACTACTTTAAACACCCTTTTAAGTGAAGGTACTAATGGAGAAAACATGCAGGCTGCACATGAAAGATTGGAGGCTTTGGAGAATGCAATTGAAAGTATTGAGAATGGTTTGGAGAACTTATTTAGGCGCTTGATTAAATCTAGAGCTTCTCTCTTGAATATAATTTCTCAATAG
Protein sequence

>MS.gene017568.t1

MAIKYHVRSISLPSRSHPSTIRVDEELNKLKTWEGTSTSCSIHSGLSLIDDLYISLDDLLNMASTQQVISHHRGEKCIEEVLDSSMRILDICGITRDTILQIKENVQALHSCLRRRKGDSSVERSVVEYKFFTKKMKKNVNKLITSLKQMDSKICMSSTLELDHHLYSLIRVFKEVIAMNLSIFQIILSFLTMSSSKSKTTKWKFVAKMMHKGVITCEDNSDNVNEFLCVETTLNTLLSEGTNGENMQAAHERLEALENAIESIENGLENLFRRLIKSRASLLNIISQ