AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene64850

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64850.t1 MTR_5g023350 89.510 286 27 1 1 283 1 286 0.0 501
MS.gene64850.t1 MTR_5g023370 88.811 286 29 1 1 283 1 286 9.38e-180 496
MS.gene64850.t1 MTR_5g023340 88.112 286 31 1 1 283 1 286 2.02e-178 493
MS.gene64850.t1 MTR_5g023390 88.112 286 31 1 1 283 1 286 2.18e-178 493
MS.gene64850.t1 MTR_5g023320 86.879 282 36 1 1 281 1 282 1.07e-176 488
MS.gene64850.t1 MTR_5g023600 87.762 286 32 1 1 283 1 286 5.24e-176 487
MS.gene64850.t1 MTR_5g023530 86.063 287 36 2 1 283 1 287 8.51e-173 479
MS.gene64850.t1 MTR_5g023470 85.366 287 38 2 1 283 1 287 4.75e-171 474
MS.gene64850.t1 MTR_5g023550 86.268 284 35 2 1 281 1 283 1.49e-170 473
MS.gene64850.t1 MTR_5g023520 84.912 285 38 3 1 281 1 284 2.24e-170 473
MS.gene64850.t1 MTR_5g023580 81.469 286 46 3 1 279 1 286 7.55e-159 446
MS.gene64850.t1 MTR_8g074450 66.899 287 86 3 4 281 3 289 2.53e-134 382
MS.gene64850.t1 MTR_8g074510 63.287 286 94 4 5 281 4 287 2.73e-126 361
MS.gene64850.t1 MTR_8g074420 64.583 288 93 3 3 281 2 289 8.30e-125 357
MS.gene64850.t1 MTR_5g023460 82.162 185 26 2 100 281 11 191 2.66e-105 304
MS.gene64850.t1 MTR_8g074530 42.759 290 153 6 3 281 17 304 2.57e-64 204
MS.gene64850.t1 MTR_5g023290 37.333 300 167 5 3 281 9 308 5.28e-55 180
MS.gene64850.t1 MTR_5g023410 89.899 99 10 0 3 101 2 100 4.30e-53 172
MS.gene64850.t1 MTR_5g023650 35.395 291 171 4 8 281 14 304 8.30e-49 164
MS.gene64850.t1 MTR_8g074380 36.789 299 150 7 1 282 7 283 1.85e-47 161
MS.gene64850.t1 MTR_4g070530 34.035 285 174 5 7 280 13 294 6.47e-43 149
MS.gene64850.t1 MTR_3g116950 35.172 290 166 10 6 280 12 294 1.42e-38 137
MS.gene64850.t1 MTR_4g070590 35.154 293 172 8 3 280 10 299 5.26e-38 136
MS.gene64850.t1 MTR_4g070540 32.270 282 181 5 7 279 13 293 4.46e-37 133
MS.gene64850.t1 MTR_4g070570 30.405 296 184 9 2 280 11 301 1.06e-36 132
MS.gene64850.t1 MTR_3g116920 32.302 291 175 9 6 280 12 296 3.96e-32 120
MS.gene64850.t1 MTR_1g037820 30.901 233 142 5 52 281 9 225 2.18e-26 103
MS.gene64850.t1 MTR_3g115150 27.907 301 184 9 6 283 27 317 4.01e-25 102
MS.gene64850.t1 MTR_5g023540 50.769 65 32 0 163 227 1 65 4.32e-14 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64850.t1 AT4G35690 36.749 283 167 6 5 281 7 283 2.82e-56 183
MS.gene64850.t1 AT2G17680 37.374 297 154 10 5 281 7 291 2.25e-46 157
MS.gene64850.t1 AT2G17080 36.232 276 156 5 6 280 5 261 4.29e-44 150
MS.gene64850.t1 AT4G35710 34.375 288 166 7 5 281 7 282 2.81e-42 147
MS.gene64850.t1 AT4G35200 34.182 275 154 6 6 279 5 253 4.63e-40 140
MS.gene64850.t1 AT2G17070 34.672 274 159 5 6 278 5 259 5.56e-40 140
MS.gene64850.t1 AT4G35210 33.935 277 149 7 6 279 5 250 1.02e-38 136
MS.gene64850.t1 AT4G35680 32.215 298 172 9 8 281 18 309 2.25e-25 102
MS.gene64850.t1 AT4G35660 29.900 301 171 10 1 282 9 288 6.68e-24 98.6
MS.gene64850.t1 AT1G76240 27.586 290 185 8 6 281 29 307 1.69e-23 97.8
MS.gene64850.t1 AT4G35720 29.206 315 180 10 6 281 14 324 2.30e-22 95.1
MS.gene64850.t1 AT1G76210 29.707 239 142 6 48 281 8 225 1.97e-20 87.8
MS.gene64850.t1 AT3G51400 30.201 298 169 12 1 282 1 275 1.96e-17 80.5
MS.gene64850.t1 AT1G20520 26.778 239 149 7 48 281 8 225 2.08e-15 74.3
MS.gene64850.t1 AT3G51410 30.576 278 152 8 8 281 39 279 9.89e-15 73.2
MS.gene64850.t1 AT1G76220 27.241 290 164 8 2 282 5 256 7.07e-12 64.7

Find 42 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTAGAACCTTCACTTAAA+AGG 0.147472 5.1:-14233586 None:intergenic
AAACATATGGAAAGTAAATT+TGG 0.150071 5.1:+14233332 MS.gene64850:CDS
GCAATTGAAATGATAGAAAA+TGG 0.225171 5.1:+14233641 MS.gene64850:CDS
ATTTGGAGCTTCTTCACTTT+TGG 0.228370 5.1:+14233349 MS.gene64850:CDS
TGAAGATTTGTATATTTCTT+TGG 0.280108 5.1:+14233037 MS.gene64850:CDS
TGTTCTATTCTTGTGGAGTT+AGG 0.282747 5.1:-14232936 None:intergenic
CTTTGTGAAGAATTTATATT+CGG 0.312307 5.1:-14233270 None:intergenic
GGATGGTTCGGTGAAACTTT+TGG 0.319887 5.1:+14233136 MS.gene64850:CDS
CACTTCAATCTTCTATTAGA+AGG 0.332990 5.1:+14233213 MS.gene64850:CDS
AGAGAATATATTTAGGCGTT+TGG 0.352912 5.1:+14233667 MS.gene64850:CDS
ACATGAAAGATTTGAGGCTT+TGG 0.368202 5.1:+14233613 MS.gene64850:CDS
ATTAGAACCTTCACTTAAAA+GGG 0.369203 5.1:-14233585 None:intergenic
TTGCATCAAGTTCAACCATT+TGG 0.369638 5.1:-14233492 None:intergenic
GATCACATCTTTAAAACATA+TGG 0.406627 5.1:+14233319 MS.gene64850:CDS
ATGGTTTAGAGAATATATTT+AGG 0.442461 5.1:+14233660 MS.gene64850:CDS
TGTTACACATGAAAGATTTG+AGG 0.459300 5.1:+14233607 MS.gene64850:CDS
ATCTTCTATTAGAAGGAGAA+AGG 0.461230 5.1:+14233220 MS.gene64850:CDS
CAATATGTCATCAACACAAA+AGG 0.479628 5.1:+14233070 MS.gene64850:CDS
GGAAGAGTTGATGGATGGTT+CGG 0.480753 5.1:+14233124 MS.gene64850:CDS
TAGGTCTTGTTCTATTCTTG+TGG 0.483171 5.1:-14232943 None:intergenic
AATATACAAATCTTCAAGAA+AGG 0.505581 5.1:-14233030 None:intergenic
GGTTGAACTTGATGCAAAAG+AGG 0.510512 5.1:+14233498 MS.gene64850:CDS
TCTTCTATTAGAAGGAGAAA+GGG 0.519349 5.1:+14233221 MS.gene64850:CDS
CTCACCTTGATGGTGAGAAA+CGG 0.520029 5.1:-14233093 None:intergenic
TGGATATATGTGGCATCACA+AGG 0.534307 5.1:+14233156 MS.gene64850:CDS
GAGTTAGGATGAGATTGAGA+AGG 0.554693 5.1:-14232921 None:intergenic
CAAAGTCAAAGGCAACCAAA+TGG 0.562903 5.1:+14233477 MS.gene64850:CDS
ACCTAACCAAAATCAAAACA+TGG 0.567775 5.1:+14232961 MS.gene64850:CDS
GAAAACTGTTTGAGCGAACA+TGG 0.570657 5.1:-14232899 None:intergenic
TTCAAGAAAGGAAAGACCGT+TGG 0.588227 5.1:-14233018 None:intergenic
TGGATCTTCATCAAAGTCAA+AGG 0.588491 5.1:+14233466 MS.gene64850:CDS
GGTAACGTGTGAAGAGAACA+TGG 0.597176 5.1:+14233520 MS.gene64850:CDS
GTTGAACTTGATGCAAAAGA+GGG 0.603826 5.1:+14233499 MS.gene64850:CDS
TTTCAATGAATTGCAGTGTG+TGG 0.611573 5.1:+14233547 MS.gene64850:CDS
ATCAGATGTGGATGTTGATG+TGG 0.611639 5.1:-14232988 None:intergenic
AGTGATTACAGTTCTTAGAG+AGG 0.623623 5.1:+14233394 MS.gene64850:CDS
GTTGGTAATTGAATCAGATG+TGG 0.634330 5.1:-14233000 None:intergenic
CCTAACCAAAATCAAAACAT+GGG 0.639238 5.1:+14232962 MS.gene64850:CDS
AAGGCCGTTTCTCACCATCA+AGG 0.642576 5.1:+14233089 MS.gene64850:CDS
GGATATATGTGGCATCACAA+GGG 0.664791 5.1:+14233157 MS.gene64850:CDS
ACATCTGATTCAATTACCAA+CGG 0.671232 5.1:+14233002 MS.gene64850:CDS
GAACTGTAATCACTACAACA+AGG 0.713093 5.1:-14233385 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACATATGGAAAGTAAATT+TGG + chr5.1:14233332-14233351 MS.gene64850:CDS 20.0%
!! AATATACAAATCTTCAAGAA+AGG - chr5.1:14233033-14233052 None:intergenic 20.0%
!! ATGGTTTAGAGAATATATTT+AGG + chr5.1:14233660-14233679 MS.gene64850:CDS 20.0%
!! CTTTGTGAAGAATTTATATT+CGG - chr5.1:14233273-14233292 None:intergenic 20.0%
!! TGAAGATTTGTATATTTCTT+TGG + chr5.1:14233037-14233056 MS.gene64850:CDS 20.0%
!!! GTTTTCTTTAATTTGTAACA+TGG - chr5.1:14233186-14233205 None:intergenic 20.0%
! ATTAGAACCTTCACTTAAAA+GGG - chr5.1:14233588-14233607 None:intergenic 25.0%
! GCAATTGAAATGATAGAAAA+TGG + chr5.1:14233641-14233660 MS.gene64850:CDS 25.0%
!!! GATCACATCTTTAAAACATA+TGG + chr5.1:14233319-14233338 MS.gene64850:CDS 25.0%
ACATCTGATTCAATTACCAA+CGG + chr5.1:14233002-14233021 MS.gene64850:CDS 30.0%
ACCTAACCAAAATCAAAACA+TGG + chr5.1:14232961-14232980 MS.gene64850:CDS 30.0%
AGAGAATATATTTAGGCGTT+TGG + chr5.1:14233667-14233686 MS.gene64850:CDS 30.0%
ATCTTCTATTAGAAGGAGAA+AGG + chr5.1:14233220-14233239 MS.gene64850:CDS 30.0%
CAATATGTCATCAACACAAA+AGG + chr5.1:14233070-14233089 MS.gene64850:CDS 30.0%
CACTTCAATCTTCTATTAGA+AGG + chr5.1:14233213-14233232 MS.gene64850:CDS 30.0%
CATTAGAACCTTCACTTAAA+AGG - chr5.1:14233589-14233608 None:intergenic 30.0%
CCTAACCAAAATCAAAACAT+GGG + chr5.1:14232962-14232981 MS.gene64850:CDS 30.0%
GATGAAGAAAAATGTCACAA+AGG + chr5.1:14233295-14233314 MS.gene64850:CDS 30.0%
TCTTCTATTAGAAGGAGAAA+GGG + chr5.1:14233221-14233240 MS.gene64850:CDS 30.0%
TGTTACACATGAAAGATTTG+AGG + chr5.1:14233607-14233626 MS.gene64850:CDS 30.0%
! GTGAAACTTTTGGATATATG+TGG + chr5.1:14233146-14233165 MS.gene64850:CDS 30.0%
!! GAAATTTTTGGAAGAGTTGA+TGG + chr5.1:14233115-14233134 MS.gene64850:CDS 30.0%
!! TCAATCAGTTTTGTCTTTCT+TGG + chr5.1:14233442-14233461 MS.gene64850:CDS 30.0%
!! TTAAGAACCCTTTTAAGTGA+AGG + chr5.1:14233578-14233597 MS.gene64850:CDS 30.0%
AGTGATTACAGTTCTTAGAG+AGG + chr5.1:14233394-14233413 MS.gene64850:CDS 35.0%
CCAAAAATTTCTCACCTTGA+TGG - chr5.1:14233106-14233125 None:intergenic 35.0%
GAACTGTAATCACTACAACA+AGG - chr5.1:14233388-14233407 None:intergenic 35.0%
GTTGAACTTGATGCAAAAGA+GGG + chr5.1:14233499-14233518 MS.gene64850:CDS 35.0%
TGGATCTTCATCAAAGTCAA+AGG + chr5.1:14233466-14233485 MS.gene64850:CDS 35.0%
TGTTCTATTCTTGTGGAGTT+AGG - chr5.1:14232939-14232958 None:intergenic 35.0%
TTGCATCAAGTTCAACCATT+TGG - chr5.1:14233495-14233514 None:intergenic 35.0%
TTTCAATGAATTGCAGTGTG+TGG + chr5.1:14233547-14233566 MS.gene64850:CDS 35.0%
! ACATGAAAGATTTGAGGCTT+TGG + chr5.1:14233613-14233632 MS.gene64850:CDS 35.0%
! CCATCAAGGTGAGAAATTTT+TGG + chr5.1:14233103-14233122 MS.gene64850:CDS 35.0%
!! ATTTGGAGCTTCTTCACTTT+TGG + chr5.1:14233349-14233368 MS.gene64850:CDS 35.0%
!! GTTGGTAATTGAATCAGATG+TGG - chr5.1:14233003-14233022 None:intergenic 35.0%
!! TAGGTCTTGTTCTATTCTTG+TGG - chr5.1:14232946-14232965 None:intergenic 35.0%
!! TCAGTTTTGTCTTTCTTGGT+TGG + chr5.1:14233446-14233465 MS.gene64850:CDS 35.0%
!!! CCCATGTTTTGATTTTGGTT+AGG - chr5.1:14232965-14232984 None:intergenic 35.0%
!!! TTTTTGGAAGAGTTGATGGA+TGG + chr5.1:14233119-14233138 MS.gene64850:CDS 35.0%
ATCAGATGTGGATGTTGATG+TGG - chr5.1:14232991-14233010 None:intergenic 40.0%
CAAAGTCAAAGGCAACCAAA+TGG + chr5.1:14233477-14233496 MS.gene64850:CDS 40.0%
GAAAACTGTTTGAGCGAACA+TGG - chr5.1:14232902-14232921 None:intergenic 40.0%
GAGTTAGGATGAGATTGAGA+AGG - chr5.1:14232924-14232943 None:intergenic 40.0%
GGATATATGTGGCATCACAA+GGG + chr5.1:14233157-14233176 MS.gene64850:CDS 40.0%
GGTTGAACTTGATGCAAAAG+AGG + chr5.1:14233498-14233517 MS.gene64850:CDS 40.0%
TGGATATATGTGGCATCACA+AGG + chr5.1:14233156-14233175 MS.gene64850:CDS 40.0%
TTCAAGAAAGGAAAGACCGT+TGG - chr5.1:14233021-14233040 None:intergenic 40.0%
!!! GGCTTCCCATGTTTTGATTT+TGG - chr5.1:14232970-14232989 None:intergenic 40.0%
GGTAACGTGTGAAGAGAACA+TGG + chr5.1:14233520-14233539 MS.gene64850:CDS 45.0%
!! CTCACCTTGATGGTGAGAAA+CGG - chr5.1:14233096-14233115 None:intergenic 45.0%
!! GGAAGAGTTGATGGATGGTT+CGG + chr5.1:14233124-14233143 MS.gene64850:CDS 45.0%
!!! GGATGGTTCGGTGAAACTTT+TGG + chr5.1:14233136-14233155 MS.gene64850:CDS 45.0%
AAGGCCGTTTCTCACCATCA+AGG + chr5.1:14233089-14233108 MS.gene64850:CDS 50.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 14232882 14233733 14232882 ID=MS.gene64850
chr5.1 mRNA 14232882 14233733 14232882 ID=MS.gene64850.t1;Parent=MS.gene64850
chr5.1 exon 14232882 14233733 14232882 ID=MS.gene64850.t1.exon1;Parent=MS.gene64850.t1
chr5.1 CDS 14232882 14233733 14232882 ID=cds.MS.gene64850.t1;Parent=MS.gene64850.t1
Gene Sequence

>MS.gene64850

ATGGCAAGCAACAAGTACCATGTTCGCTCAAACAGTTTTCCTTCTCAATCTCATCCTAACTCCACAAGAATAGAACAAGACCTAACCAAAATCAAAACATGGGAAGCCACATCAACATCCACATCTGATTCAATTACCAACGGTCTTTCCTTTCTTGAAGATTTGTATATTTCTTTGGAAGATCTTCTCAATATGTCATCAACACAAAAGGCCGTTTCTCACCATCAAGGTGAGAAATTTTTGGAAGAGTTGATGGATGGTTCGGTGAAACTTTTGGATATATGTGGCATCACAAGGGACACCATGTTACAAATTAAAGAAAACGTTCAATCACTTCAATCTTCTATTAGAAGGAGAAAGGGAGATTCAAGCATTGAAAAAAGTATAGCCGAATATAAATTCTTCACAAAGAAGATGAAGAAAAATGTCACAAAGGTGATCACATCTTTAAAACATATGGAAAGTAAATTTGGAGCTTCTTCACTTTTGGATCAAGATCAAGACCTTGTTGTAGTGATTACAGTTCTTAGAGAGGTCATTAAAATTAACTTGTCTCTCTTTCAATCAGTTTTGTCTTTCTTGGTTGGATCTTCATCAAAGTCAAAGGCAACCAAATGGTTGAACTTGATGCAAAAGAGGGTAACGTGTGAAGAGAACATGGAGAATTTCAATGAATTGCAGTGTGTGGAAGCATCTTTAAGAACCCTTTTAAGTGAAGGTTCTAATGTTACACATGAAAGATTTGAGGCTTTGGAGAATGCAATTGAAATGATAGAAAATGGTTTAGAGAATATATTTAGGCGTTTGGTTAAAACTAGAGTCTGTCTTTTGAACATCATGACTCTATCTTAG
Protein sequence

>MS.gene64850.t1

MASNKYHVRSNSFPSQSHPNSTRIEQDLTKIKTWEATSTSTSDSITNGLSFLEDLYISLEDLLNMSSTQKAVSHHQGEKFLEELMDGSVKLLDICGITRDTMLQIKENVQSLQSSIRRRKGDSSIEKSIAEYKFFTKKMKKNVTKVITSLKHMESKFGASSLLDQDQDLVVVITVLREVIKINLSLFQSVLSFLVGSSSKSKATKWLNLMQKRVTCEENMENFNELQCVEASLRTLLSEGSNVTHERFEALENAIEMIENGLENIFRRLVKTRVCLLNIMTLS