AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67608

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67608.t1 MTR_5g023580 93.007 286 20 0 1 286 1 286 0.0 517
MS.gene67608.t1 MTR_5g023350 84.828 290 40 2 1 290 1 286 5.60e-171 474
MS.gene67608.t1 MTR_5g023340 82.759 290 46 2 1 290 1 286 9.43e-166 461
MS.gene67608.t1 MTR_5g023600 83.103 290 45 2 1 290 1 286 1.34e-165 461
MS.gene67608.t1 MTR_5g023320 83.391 289 40 4 1 288 1 282 1.88e-165 460
MS.gene67608.t1 MTR_5g023390 81.724 290 49 2 1 290 1 286 1.01e-164 459
MS.gene67608.t1 MTR_5g023520 80.769 286 52 1 3 288 2 284 1.99e-161 450
MS.gene67608.t1 MTR_5g023370 80.000 290 54 2 1 290 1 286 3.34e-161 450
MS.gene67608.t1 MTR_5g023530 80.412 291 52 3 1 290 1 287 8.50e-161 449
MS.gene67608.t1 MTR_5g023470 79.381 291 55 3 1 290 1 287 1.43e-158 443
MS.gene67608.t1 MTR_5g023550 80.070 286 53 2 3 288 2 283 1.39e-157 441
MS.gene67608.t1 MTR_8g074450 65.505 287 97 1 4 288 3 289 3.35e-132 376
MS.gene67608.t1 MTR_8g074510 62.807 285 102 2 6 288 5 287 7.06e-127 363
MS.gene67608.t1 MTR_8g074420 64.583 288 100 1 3 288 2 289 3.13e-124 356
MS.gene67608.t1 MTR_5g023460 78.307 189 33 3 100 288 11 191 1.60e-98 287
MS.gene67608.t1 MTR_8g074530 41.176 289 166 3 3 288 17 304 2.70e-65 207
MS.gene67608.t1 MTR_5g023290 37.667 300 173 5 3 288 9 308 1.56e-56 184
MS.gene67608.t1 MTR_5g023410 89.899 99 10 0 3 101 2 100 1.67e-51 168
MS.gene67608.t1 MTR_4g070530 32.394 284 185 2 7 286 13 293 8.41e-47 159
MS.gene67608.t1 MTR_5g023650 34.130 293 179 4 8 288 14 304 6.48e-44 152
MS.gene67608.t1 MTR_8g074380 34.448 299 164 6 1 289 7 283 6.55e-44 152
MS.gene67608.t1 MTR_4g070590 33.788 293 183 6 3 287 10 299 1.28e-41 145
MS.gene67608.t1 MTR_4g070540 32.632 285 183 4 7 286 13 293 5.98e-41 144
MS.gene67608.t1 MTR_3g116950 33.562 292 177 8 5 287 11 294 8.06e-41 143
MS.gene67608.t1 MTR_4g070570 31.525 295 187 7 3 287 12 301 9.84e-41 143
MS.gene67608.t1 MTR_3g116920 31.271 291 187 8 5 287 11 296 2.23e-35 129
MS.gene67608.t1 MTR_3g115150 27.541 305 189 10 5 290 26 317 9.33e-23 95.9
MS.gene67608.t1 MTR_1g037820 29.289 239 145 6 52 288 9 225 3.42e-22 92.8
MS.gene67608.t1 MTR_5g023540 55.072 69 27 1 163 231 1 65 3.04e-16 72.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67608.t1 AT4G35690 36.082 291 161 6 7 288 9 283 5.54e-54 177
MS.gene67608.t1 AT2G17080 36.042 283 156 5 5 287 4 261 2.14e-47 159
MS.gene67608.t1 AT2G17680 36.700 297 159 10 7 288 9 291 2.37e-45 155
MS.gene67608.t1 AT2G17070 36.299 281 154 5 5 285 4 259 1.20e-44 152
MS.gene67608.t1 AT4G35200 34.043 282 154 8 5 286 4 253 2.44e-42 146
MS.gene67608.t1 AT4G35710 35.495 293 159 8 7 288 9 282 3.29e-42 147
MS.gene67608.t1 AT4G35210 32.624 282 155 7 5 286 4 250 2.80e-39 138
MS.gene67608.t1 AT4G35720 32.177 317 175 11 6 288 14 324 3.90e-25 102
MS.gene67608.t1 AT4G35660 30.363 303 174 10 1 289 9 288 1.02e-23 98.2
MS.gene67608.t1 AT1G76240 28.814 295 184 8 5 288 28 307 3.49e-23 97.1
MS.gene67608.t1 AT4G35680 30.537 298 184 8 8 288 18 309 4.90e-23 96.7
MS.gene67608.t1 AT3G51400 31.293 294 171 10 5 289 4 275 3.07e-21 91.3
MS.gene67608.t1 AT1G76210 28.216 241 150 7 48 288 8 225 9.10e-18 80.5
MS.gene67608.t1 AT3G51410 31.930 285 146 10 8 288 39 279 2.49e-17 80.5
MS.gene67608.t1 AT1G20520 28.099 242 149 5 48 288 8 225 2.81e-14 71.2
MS.gene67608.t1 AT1G76220 27.609 297 159 10 3 289 6 256 1.96e-11 63.5

Find 47 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTTGAACCTTCTCTTAAA+AGG 0.130949 5.2:+14185679 None:intergenic
TCAATCCCTTCTGTCTTTCT+TGG 0.146590 5.2:-14185835 MS.gene67608:CDS
AAACATATGGAAACTAAATT+TGG 0.158363 5.2:-14185945 MS.gene67608:CDS
TGAAGATTTGTATATTTCTT+TGG 0.249422 5.2:-14186240 MS.gene67608:CDS
GGATGGTTCAGTGAAAATTT+TGG 0.269131 5.2:-14186141 MS.gene67608:CDS
TGTTCTATTCTTGTGGAGTT+AGG 0.269345 5.2:+14186341 None:intergenic
GCAGTTGAAATGATAGAAAA+TGG 0.276517 5.2:-14185615 MS.gene67608:CDS
GAAATTTGTGGAAGAGTTGT+TGG 0.365610 5.2:-14186162 MS.gene67608:CDS
TCCCTTCTGTCTTTCTTGGT+TGG 0.372129 5.2:-14185831 MS.gene67608:CDS
GATCACATCTTTAAAACATA+TGG 0.374642 5.2:-14185958 MS.gene67608:CDS
CCACAAATTTCTCACCTTGA+CGG 0.385796 5.2:+14186174 None:intergenic
CACTTCACTCTGCTCTTAGA+AGG 0.386439 5.2:-14186064 MS.gene67608:CDS
ATGGTTTGGAGAATGTATTC+AGG 0.393957 5.2:-14185596 MS.gene67608:CDS
TGAAATGATAGAAAATGGTT+TGG 0.414105 5.2:-14185610 MS.gene67608:CDS
ATTTGAACCTTCTCTTAAAA+GGG 0.423698 5.2:+14185680 None:intergenic
TAGCTCTTGTTCTATTCTTG+TGG 0.426456 5.2:+14186334 None:intergenic
TGGATATCTGCGGCATTACA+AGG 0.456961 5.2:-14186121 MS.gene67608:CDS
ACGTGAAAGATTTGAGGCTT+TGG 0.459544 5.2:-14185643 MS.gene67608:CDS
CCGTCAAGGTGAGAAATTTG+TGG 0.469848 5.2:-14186174 MS.gene67608:CDS
AATCTCATGTGAAGAGAAGT+TGG 0.471471 5.2:-14185745 MS.gene67608:CDS
CAATATGTCATCAACACAAA+AGG 0.479628 5.2:-14186207 MS.gene67608:CDS
CAAAGTCAAAGGCAACCAAT+TGG 0.497280 5.2:-14185800 MS.gene67608:CDS
GGCAACCAATTGGTTTAAAG+TGG 0.497640 5.2:-14185790 MS.gene67608:CDS
GGAGAATGTATTCAGGCGTA+TGG 0.499487 5.2:-14185589 MS.gene67608:CDS
AATATACAAATCTTCAAGAA+AGG 0.505581 5.2:+14186247 None:intergenic
AGAAGGTTCAAATGTTTCAA+AGG 0.515818 5.2:-14185670 MS.gene67608:CDS
CTCTGCTCTTAGAAGGAGAA+AGG 0.522599 5.2:-14186057 MS.gene67608:CDS
GGATGCACGTGAAAGATTTG+AGG 0.524031 5.2:-14185649 MS.gene67608:CDS
GAAAACTGTTTGAGCGAACA+TGG 0.558238 5.2:+14186378 None:intergenic
CTCACCTTGACGGTGAGCAA+TGG 0.559285 5.2:+14186184 None:intergenic
ACATCTGATTCAATTACCAC+TGG 0.584960 5.2:-14186275 MS.gene67608:CDS
TGGTTCTGCATCAAAGTCAA+AGG 0.586052 5.2:-14185811 MS.gene67608:CDS
GGATATCTGCGGCATTACAA+GGG 0.590581 5.2:-14186120 MS.gene67608:CDS
TTCATCTTGATTCAAAAGCG+AGG 0.591703 5.2:+14185917 None:intergenic
AACCAACCAAGAAAGACAGA+AGG 0.599142 5.2:+14185829 None:intergenic
ACAAATCTTCAAGAAAGGAA+AGG 0.601275 5.2:+14186252 None:intergenic
AGTGATTACAGTTATTAGAG+AGG 0.603135 5.2:-14185883 MS.gene67608:CDS
ATCAGATGTGGATGTTGATG+TGG 0.611639 5.2:+14186289 None:intergenic
AAGGCCATTGCTCACCGTCA+AGG 0.611754 5.2:-14186188 MS.gene67608:CDS
TTTGTGGAAGAGTTGTTGGA+TGG 0.615570 5.2:-14186158 MS.gene67608:CDS
GAGTTAGGATGTGATTGAGA+AGG 0.634141 5.2:+14186356 None:intergenic
ACCAACCAAGAAAGACAGAA+GGG 0.651763 5.2:+14185830 None:intergenic
AGCTATGCAAGATCAAGACA+TGG 0.654263 5.2:-14186316 MS.gene67608:CDS
TTCAAGAAAGGAAAGGCCAG+TGG 0.658882 5.2:+14186259 None:intergenic
TAACTGTAATCACTGCAACA+AGG 0.659068 5.2:+14185892 None:intergenic
AGTGGTAATTGAATCAGATG+TGG 0.659124 5.2:+14186277 None:intergenic
GCTATGCAAGATCAAGACAT+GGG 0.684944 5.2:-14186315 MS.gene67608:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACATATGGAAACTAAATT+TGG - chr5.2:14185995-14186014 MS.gene67608:CDS 20.0%
!! AATATACAAATCTTCAAGAA+AGG + chr5.2:14185696-14185715 None:intergenic 20.0%
!! TGAAGATTTGTATATTTCTT+TGG - chr5.2:14185700-14185719 MS.gene67608:CDS 20.0%
!!! ATTTTCTTTAATTTGTGACA+TGG + chr5.2:14185849-14185868 None:intergenic 20.0%
! ATTTGAACCTTCTCTTAAAA+GGG + chr5.2:14186263-14186282 None:intergenic 25.0%
! TGAAATGATAGAAAATGGTT+TGG - chr5.2:14186330-14186349 MS.gene67608:CDS 25.0%
!!! GATCACATCTTTAAAACATA+TGG - chr5.2:14185982-14186001 MS.gene67608:CDS 25.0%
ACAAATCTTCAAGAAAGGAA+AGG + chr5.2:14185691-14185710 None:intergenic 30.0%
AGAAGGTTCAAATGTTTCAA+AGG - chr5.2:14186270-14186289 MS.gene67608:CDS 30.0%
AGTGATTACAGTTATTAGAG+AGG - chr5.2:14186057-14186076 MS.gene67608:CDS 30.0%
CAATATGTCATCAACACAAA+AGG - chr5.2:14185733-14185752 MS.gene67608:CDS 30.0%
CATTTGAACCTTCTCTTAAA+AGG + chr5.2:14186264-14186283 None:intergenic 30.0%
GCAGTTGAAATGATAGAAAA+TGG - chr5.2:14186325-14186344 MS.gene67608:CDS 30.0%
! GTGAAAATTTTGGATATCTG+CGG - chr5.2:14185809-14185828 MS.gene67608:CDS 30.0%
!!! TTTTGCCACTTTAAACCAAT+TGG + chr5.2:14186158-14186177 None:intergenic 30.0%
AATCTCATGTGAAGAGAAGT+TGG - chr5.2:14186195-14186214 MS.gene67608:CDS 35.0%
ACATCTGATTCAATTACCAC+TGG - chr5.2:14185665-14185684 MS.gene67608:CDS 35.0%
AGTGGTAATTGAATCAGATG+TGG + chr5.2:14185666-14185685 None:intergenic 35.0%
GAAATTTGTGGAAGAGTTGT+TGG - chr5.2:14185778-14185797 MS.gene67608:CDS 35.0%
TAACTGTAATCACTGCAACA+AGG + chr5.2:14186051-14186070 None:intergenic 35.0%
TAGCTCTTGTTCTATTCTTG+TGG + chr5.2:14185609-14185628 None:intergenic 35.0%
TGTTCTATTCTTGTGGAGTT+AGG + chr5.2:14185602-14185621 None:intergenic 35.0%
TTCATCTTGATTCAAAAGCG+AGG + chr5.2:14186026-14186045 None:intergenic 35.0%
! ATGGTTTGGAGAATGTATTC+AGG - chr5.2:14186344-14186363 MS.gene67608:CDS 35.0%
! GGATGGTTCAGTGAAAATTT+TGG - chr5.2:14185799-14185818 MS.gene67608:CDS 35.0%
!! TTGAGAACCCTTTTAAGAGA+AGG - chr5.2:14186253-14186272 MS.gene67608:CDS 35.0%
AACCAACCAAGAAAGACAGA+AGG + chr5.2:14186114-14186133 None:intergenic 40.0%
ACCAACCAAGAAAGACAGAA+GGG + chr5.2:14186113-14186132 None:intergenic 40.0%
AGCTATGCAAGATCAAGACA+TGG - chr5.2:14185624-14185643 MS.gene67608:CDS 40.0%
ATCAGATGTGGATGTTGATG+TGG + chr5.2:14185654-14185673 None:intergenic 40.0%
CAAAGTCAAAGGCAACCAAT+TGG - chr5.2:14186140-14186159 MS.gene67608:CDS 40.0%
CCACAAATTTCTCACCTTGA+CGG + chr5.2:14185769-14185788 None:intergenic 40.0%
GAAAACTGTTTGAGCGAACA+TGG + chr5.2:14185565-14185584 None:intergenic 40.0%
GAGTTAGGATGTGATTGAGA+AGG + chr5.2:14185587-14185606 None:intergenic 40.0%
GCTATGCAAGATCAAGACAT+GGG - chr5.2:14185625-14185644 MS.gene67608:CDS 40.0%
TCAATCCCTTCTGTCTTTCT+TGG - chr5.2:14186105-14186124 MS.gene67608:CDS 40.0%
TTTGTGGAAGAGTTGTTGGA+TGG - chr5.2:14185782-14185801 MS.gene67608:CDS 40.0%
! ACGTGAAAGATTTGAGGCTT+TGG - chr5.2:14186297-14186316 MS.gene67608:CDS 40.0%
! GGCAACCAATTGGTTTAAAG+TGG - chr5.2:14186150-14186169 MS.gene67608:CDS 40.0%
! TGGTTCTGCATCAAAGTCAA+AGG - chr5.2:14186129-14186148 MS.gene67608:CDS 40.0%
CACTTCACTCTGCTCTTAGA+AGG - chr5.2:14185876-14185895 MS.gene67608:CDS 45.0%
CCGTCAAGGTGAGAAATTTG+TGG - chr5.2:14185766-14185785 MS.gene67608:CDS 45.0%
CTCTGCTCTTAGAAGGAGAA+AGG - chr5.2:14185883-14185902 MS.gene67608:CDS 45.0%
GGAGAATGTATTCAGGCGTA+TGG - chr5.2:14186351-14186370 MS.gene67608:CDS 45.0%
GGATATCTGCGGCATTACAA+GGG - chr5.2:14185820-14185839 MS.gene67608:CDS 45.0%
GGATGCACGTGAAAGATTTG+AGG - chr5.2:14186291-14186310 MS.gene67608:CDS 45.0%
TCCCTTCTGTCTTTCTTGGT+TGG - chr5.2:14186109-14186128 MS.gene67608:CDS 45.0%
TGGATATCTGCGGCATTACA+AGG - chr5.2:14185819-14185838 MS.gene67608:CDS 45.0%
TTCAAGAAAGGAAAGGCCAG+TGG + chr5.2:14185684-14185703 None:intergenic 45.0%
AAGGCCATTGCTCACCGTCA+AGG - chr5.2:14185752-14185771 MS.gene67608:CDS 55.0%
CTCACCTTGACGGTGAGCAA+TGG + chr5.2:14185759-14185778 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 14185545 14186417 14185545 ID=MS.gene67608
chr5.2 mRNA 14185545 14186417 14185545 ID=MS.gene67608.t1;Parent=MS.gene67608
chr5.2 exon 14185545 14186417 14185545 ID=MS.gene67608.t1.exon1;Parent=MS.gene67608.t1
chr5.2 CDS 14185545 14186417 14185545 ID=cds.MS.gene67608.t1;Parent=MS.gene67608.t1
Gene Sequence

>MS.gene67608

ATGGGAAGCAACAACTACCATGTTCGCTCAAACAGTTTTCCTTCTCAATCACATCCTAACTCCACAAGAATAGAACAAGAGCTATGCAAGATCAAGACATGGGAAGCCACATCAACATCCACATCTGATTCAATTACCACTGGCCTTTCCTTTCTTGAAGATTTGTATATTTCTTTGGAAAATCTTCTCAATATGTCATCAACACAAAAGGCCATTGCTCACCGTCAAGGTGAGAAATTTGTGGAAGAGTTGTTGGATGGTTCAGTGAAAATTTTGGATATCTGCGGCATTACAAGGGACACCATGTCACAAATTAAAGAAAATGTTCAAACACTTCACTCTGCTCTTAGAAGGAGAAAGGCAGATTCAAGCATTGAAACAAGTGTAGCAGAATATAAATTCTTCACAAAGAAGATGAAGAAGAATGTCACAAAGTTGATCACATCTTTAAAACATATGGAAACTAAATTTGGAGTTTCCTCGCTTTTGAATCAAGATGAAGACCTTGTTGCAGTGATTACAGTTATTAGAGAGGTCATTGCAATGAACATGTCTATCTTTCAATCCCTTCTGTCTTTCTTGGTTGGTTCTGCATCAAAGTCAAAGGCAACCAATTGGTTTAAAGTGGCAAAATTGATGCATAAAACGACAATCTCATGTGAAGAGAAGTTGGAGAATTTCAATGAATTGCAGTTAGTTGATGCATCTTTGAGAACCCTTTTAAGAGAAGGTTCAAATGTTTCAAAGGATGCACGTGAAAGATTTGAGGCTTTGGAGAATGCAGTTGAAATGATAGAAAATGGTTTGGAGAATGTATTCAGGCGTATGGTTAAAACTAGAGTCAGTCTTTTGAACATTATGACTCTATCTTAG
Protein sequence

>MS.gene67608.t1

MGSNNYHVRSNSFPSQSHPNSTRIEQELCKIKTWEATSTSTSDSITTGLSFLEDLYISLENLLNMSSTQKAIAHRQGEKFVEELLDGSVKILDICGITRDTMSQIKENVQTLHSALRRRKADSSIETSVAEYKFFTKKMKKNVTKLITSLKHMETKFGVSSLLNQDEDLVAVITVIREVIAMNMSIFQSLLSFLVGSASKSKATNWFKVAKLMHKTTISCEEKLENFNELQLVDASLRTLLREGSNVSKDARERFEALENAVEMIENGLENVFRRMVKTRVSLLNIMTLS