AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67586

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67586.t1 MTR_5g023340 93.706 286 18 0 1 286 1 286 0.0 516
MS.gene67586.t1 MTR_5g023350 93.357 286 19 0 1 286 1 286 0.0 513
MS.gene67586.t1 MTR_5g023390 90.210 286 28 0 1 286 1 286 0.0 504
MS.gene67586.t1 MTR_5g023370 90.210 286 28 0 1 286 1 286 0.0 503
MS.gene67586.t1 MTR_5g023600 90.909 286 26 0 1 286 1 286 0.0 500
MS.gene67586.t1 MTR_5g023530 88.850 287 31 1 1 286 1 287 1.16e-176 489
MS.gene67586.t1 MTR_5g023520 88.772 285 30 2 1 284 1 284 6.29e-175 484
MS.gene67586.t1 MTR_5g023320 88.070 285 30 2 1 284 1 282 1.83e-174 483
MS.gene67586.t1 MTR_5g023470 87.805 287 34 1 1 286 1 287 2.72e-174 483
MS.gene67586.t1 MTR_5g023550 87.676 284 34 1 1 284 1 283 2.97e-172 478
MS.gene67586.t1 MTR_5g023580 84.266 286 41 2 1 282 1 286 1.23e-163 459
MS.gene67586.t1 MTR_8g074450 67.944 287 86 2 4 284 3 289 3.85e-136 386
MS.gene67586.t1 MTR_8g074510 64.912 285 92 3 6 284 5 287 2.33e-128 367
MS.gene67586.t1 MTR_8g074420 65.972 288 92 2 3 284 2 289 4.78e-127 363
MS.gene67586.t1 MTR_5g023460 88.108 185 18 1 100 284 11 191 2.43e-113 325
MS.gene67586.t1 MTR_8g074530 42.561 289 158 5 3 284 17 304 1.32e-62 200
MS.gene67586.t1 MTR_5g023290 36.333 300 173 4 3 284 9 308 1.46e-52 174
MS.gene67586.t1 MTR_5g023410 91.919 99 8 0 3 101 2 100 7.92e-52 169
MS.gene67586.t1 MTR_8g074380 35.714 294 163 6 1 285 7 283 4.84e-46 158
MS.gene67586.t1 MTR_4g070530 32.979 282 184 3 7 283 13 294 1.15e-42 148
MS.gene67586.t1 MTR_5g023650 34.589 292 175 5 8 284 14 304 1.68e-42 148
MS.gene67586.t1 MTR_3g116950 34.146 287 178 6 5 283 11 294 1.26e-39 140
MS.gene67586.t1 MTR_4g070570 30.508 295 188 8 2 283 11 301 1.55e-37 135
MS.gene67586.t1 MTR_4g070540 32.155 283 185 4 7 283 13 294 3.67e-37 134
MS.gene67586.t1 MTR_4g070590 33.788 293 179 7 3 283 10 299 3.54e-36 131
MS.gene67586.t1 MTR_3g116920 32.534 292 178 8 5 283 11 296 2.38e-34 126
MS.gene67586.t1 MTR_1g037820 30.041 243 134 5 52 284 9 225 1.23e-25 101
MS.gene67586.t1 MTR_3g115150 27.303 304 185 10 6 286 27 317 6.15e-22 93.6
MS.gene67586.t1 MTR_5g023540 52.941 68 29 1 163 230 1 65 5.39e-15 68.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67586.t1 AT4G35690 37.282 287 159 8 7 284 9 283 2.47e-51 170
MS.gene67586.t1 AT2G17680 37.329 292 160 9 7 284 9 291 4.90e-45 154
MS.gene67586.t1 AT2G17080 35.000 280 159 6 5 283 4 261 8.21e-43 147
MS.gene67586.t1 AT2G17070 34.532 278 159 6 5 281 4 259 3.83e-40 140
MS.gene67586.t1 AT4G35710 34.256 289 164 7 7 284 9 282 1.85e-39 139
MS.gene67586.t1 AT4G35200 32.975 279 157 8 5 282 4 253 3.69e-39 137
MS.gene67586.t1 AT4G35210 32.616 279 155 8 5 282 4 250 8.19e-37 131
MS.gene67586.t1 AT4G35680 31.667 300 174 9 8 284 18 309 1.10e-26 106
MS.gene67586.t1 AT4G35720 31.111 315 177 8 6 284 14 324 1.49e-23 98.2
MS.gene67586.t1 AT1G76240 28.328 293 184 9 5 284 28 307 1.65e-23 97.8
MS.gene67586.t1 AT4G35660 29.934 304 170 10 1 285 9 288 4.38e-22 93.6
MS.gene67586.t1 AT3G51400 30.612 294 169 10 5 285 4 275 6.77e-19 84.7
MS.gene67586.t1 AT1G76210 28.636 220 132 7 69 284 27 225 7.00e-16 75.5
MS.gene67586.t1 AT3G51410 31.429 280 150 9 8 284 39 279 4.31e-14 71.2
MS.gene67586.t1 AT1G20520 26.939 245 144 7 48 284 8 225 4.50e-13 67.8
MS.gene67586.t1 AT1G76220 26.621 293 165 8 2 285 5 256 7.60e-12 64.7

Find 43 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAACATATGGAAACTAAATT+TGG 0.157953 5.2:+14238983 MS.gene67586:CDS
GGCTTCCCATGTCTTGATTT+TGG 0.226979 5.2:-14238618 None:intergenic
TGAAGATTTGTATATTTCTT+TGG 0.280108 5.2:+14238688 MS.gene67586:CDS
GCAACTGAAATGATAGAAAA+TGG 0.294687 5.2:+14239301 MS.gene67586:CDS
CTTTGTGAAGAGTTTATATT+CGG 0.333272 5.2:-14238921 None:intergenic
CACTTCACTCTTCTCTTAGA+AGG 0.337508 5.2:+14238864 MS.gene67586:CDS
GATCACATCTTTAAAACATA+TGG 0.374642 5.2:+14238970 MS.gene67586:CDS
GGATGGTTCGGTGAAAGTTT+TGG 0.395778 5.2:+14238787 MS.gene67586:CDS
ATGGTTTAGAGAATATATTT+AGG 0.402535 5.2:+14239320 MS.gene67586:CDS
CAAAGTCAAAGGCAACAAAA+TGG 0.408302 5.2:+14239128 MS.gene67586:CDS
ACATGAAAGATTTGAGGCTT+TGG 0.411831 5.2:+14239273 MS.gene67586:CDS
CATTTGAACCTTCACTTGAA+AGG 0.414722 5.2:-14239246 None:intergenic
CTCTTCTCTTAGAAGGAGAA+AGG 0.427476 5.2:+14238871 MS.gene67586:CDS
ATTTGAACCTTCACTTGAAA+GGG 0.433756 5.2:-14239245 None:intergenic
TGTTCAATTCTAGTGGAGTA+AGG 0.449134 5.2:-14238587 None:intergenic
TGTTGCACATGAAAGATTTG+AGG 0.457835 5.2:+14239267 MS.gene67586:CDS
CAATATGTCATCAATACAAA+AGG 0.468624 5.2:+14238721 MS.gene67586:CDS
TAACTCTTGTTCAATTCTAG+TGG 0.471339 5.2:-14238594 None:intergenic
GGAAGAATTGTTGGATGGTT+CGG 0.474552 5.2:+14238775 MS.gene67586:CDS
AATATACAAATCTTCAAGAA+AGG 0.505581 5.2:-14238681 None:intergenic
TGACAAAGTTGATGCAAAAG+AGG 0.510512 5.2:+14239158 MS.gene67586:CDS
TTAAGAACCCTTTCAAGTGA+AGG 0.514521 5.2:+14239238 MS.gene67586:CDS
TGGATATATGTGGCATCACA+AGG 0.532845 5.2:+14238807 MS.gene67586:CDS
TCTTCTCTTAGAAGGAGAAA+GGG 0.543836 5.2:+14238872 MS.gene67586:CDS
GAAAACTGTTTGAGCGGACA+TGG 0.545024 5.2:-14238550 None:intergenic
GAGTAAGGATGAGATTGAGA+AGG 0.560904 5.2:-14238572 None:intergenic
ACATCTGATTCAATTACCAC+TGG 0.584960 5.2:+14238653 MS.gene67586:CDS
TGGATCTTCATCAAAGTCAA+AGG 0.588491 5.2:+14239117 MS.gene67586:CDS
GACAAAGTTGATGCAAAAGA+GGG 0.591207 5.2:+14239159 MS.gene67586:CDS
ACAAATCTTCAAGAAAGGAA+AGG 0.601275 5.2:-14238676 None:intergenic
TTGATCTTGATTCAAAAGTG+AGG 0.609457 5.2:-14239011 None:intergenic
ATCAGATGTGGATGTTGATG+TGG 0.611639 5.2:-14238639 None:intergenic
ATTGTGGAAGAATTGTTGGA+TGG 0.613251 5.2:+14238770 MS.gene67586:CDS
AAGGCTATATCTCACCATCA+AGG 0.613728 5.2:+14238740 MS.gene67586:CDS
AGTCATTACAGTTCTTAGAG+AGG 0.614040 5.2:+14239045 MS.gene67586:CDS
AGTTAACCAAAATCAAGACA+TGG 0.616346 5.2:+14238612 MS.gene67586:CDS
GGTAACATGTGAAGAGAACA+TGG 0.618682 5.2:+14239180 MS.gene67586:CDS
GAGAAGGAAAACTGTTTGAG+CGG 0.618730 5.2:-14238556 None:intergenic
GTTAACCAAAATCAAGACAT+GGG 0.625458 5.2:+14238613 MS.gene67586:CDS
TTCAAGAAAGGAAAGGCCAG+TGG 0.658882 5.2:-14238669 None:intergenic
AGTGGTAATTGAATCAGATG+TGG 0.659124 5.2:-14238651 None:intergenic
GAACTGTAATGACTGCAACA+AGG 0.659986 5.2:-14239036 None:intergenic
GGATATATGTGGCATCACAA+GGG 0.671330 5.2:+14238808 MS.gene67586:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACATATGGAAACTAAATT+TGG + chr5.2:14238983-14239002 MS.gene67586:CDS 20.0%
!! AATATACAAATCTTCAAGAA+AGG - chr5.2:14238684-14238703 None:intergenic 20.0%
!! ATGGTTTAGAGAATATATTT+AGG + chr5.2:14239320-14239339 MS.gene67586:CDS 20.0%
!! TGAAGATTTGTATATTTCTT+TGG + chr5.2:14238688-14238707 MS.gene67586:CDS 20.0%
!!! ATTTTCTTTAATCTGTAACA+TGG - chr5.2:14238837-14238856 None:intergenic 20.0%
! AAAAATTGTGGAAGAATTGT+TGG + chr5.2:14238766-14238785 MS.gene67586:CDS 25.0%
! CAATATGTCATCAATACAAA+AGG + chr5.2:14238721-14238740 MS.gene67586:CDS 25.0%
! CTTTGTGAAGAGTTTATATT+CGG - chr5.2:14238924-14238943 None:intergenic 25.0%
!!! GATCACATCTTTAAAACATA+TGG + chr5.2:14238970-14238989 MS.gene67586:CDS 25.0%
ACAAATCTTCAAGAAAGGAA+AGG - chr5.2:14238679-14238698 None:intergenic 30.0%
AGTTAACCAAAATCAAGACA+TGG + chr5.2:14238612-14238631 MS.gene67586:CDS 30.0%
ATTTGAACCTTCACTTGAAA+GGG - chr5.2:14239248-14239267 None:intergenic 30.0%
GCAACTGAAATGATAGAAAA+TGG + chr5.2:14239301-14239320 MS.gene67586:CDS 30.0%
GTTAACCAAAATCAAGACAT+GGG + chr5.2:14238613-14238632 MS.gene67586:CDS 30.0%
TAACTCTTGTTCAATTCTAG+TGG - chr5.2:14238597-14238616 None:intergenic 30.0%
TTGATCTTGATTCAAAAGTG+AGG - chr5.2:14239014-14239033 None:intergenic 30.0%
! TCAATCTGTTTTGTCTTTCT+TGG + chr5.2:14239093-14239112 MS.gene67586:CDS 30.0%
!!! GTGAAAGTTTTGGATATATG+TGG + chr5.2:14238797-14238816 MS.gene67586:CDS 30.0%
ACATCTGATTCAATTACCAC+TGG + chr5.2:14238653-14238672 MS.gene67586:CDS 35.0%
AGTCATTACAGTTCTTAGAG+AGG + chr5.2:14239045-14239064 MS.gene67586:CDS 35.0%
AGTGGTAATTGAATCAGATG+TGG - chr5.2:14238654-14238673 None:intergenic 35.0%
ATTGTGGAAGAATTGTTGGA+TGG + chr5.2:14238770-14238789 MS.gene67586:CDS 35.0%
CAAAGTCAAAGGCAACAAAA+TGG + chr5.2:14239128-14239147 MS.gene67586:CDS 35.0%
CATTTGAACCTTCACTTGAA+AGG - chr5.2:14239249-14239268 None:intergenic 35.0%
CCATCAAGGTGAAAAAATTG+TGG + chr5.2:14238754-14238773 MS.gene67586:CDS 35.0%
TCTTCTCTTAGAAGGAGAAA+GGG + chr5.2:14238872-14238891 MS.gene67586:CDS 35.0%
TGGATCTTCATCAAAGTCAA+AGG + chr5.2:14239117-14239136 MS.gene67586:CDS 35.0%
TGTTCAATTCTAGTGGAGTA+AGG - chr5.2:14238590-14238609 None:intergenic 35.0%
TGTTGCACATGAAAGATTTG+AGG + chr5.2:14239267-14239286 MS.gene67586:CDS 35.0%
! ACATGAAAGATTTGAGGCTT+TGG + chr5.2:14239273-14239292 MS.gene67586:CDS 35.0%
! TCTGTTTTGTCTTTCTTGGT+TGG + chr5.2:14239097-14239116 MS.gene67586:CDS 35.0%
! TTAAGAACCCTTTCAAGTGA+AGG + chr5.2:14239238-14239257 MS.gene67586:CDS 35.0%
!! GACAAAGTTGATGCAAAAGA+GGG + chr5.2:14239159-14239178 MS.gene67586:CDS 35.0%
!! TGACAAAGTTGATGCAAAAG+AGG + chr5.2:14239158-14239177 MS.gene67586:CDS 35.0%
!!! CCACAATTTTTTCACCTTGA+TGG - chr5.2:14238757-14238776 None:intergenic 35.0%
AAGGCTATATCTCACCATCA+AGG + chr5.2:14238740-14238759 MS.gene67586:CDS 40.0%
ATCAGATGTGGATGTTGATG+TGG - chr5.2:14238642-14238661 None:intergenic 40.0%
CACTTCACTCTTCTCTTAGA+AGG + chr5.2:14238864-14238883 MS.gene67586:CDS 40.0%
CTCTTCTCTTAGAAGGAGAA+AGG + chr5.2:14238871-14238890 MS.gene67586:CDS 40.0%
GAACTGTAATGACTGCAACA+AGG - chr5.2:14239039-14239058 None:intergenic 40.0%
GAGAAGGAAAACTGTTTGAG+CGG - chr5.2:14238559-14238578 None:intergenic 40.0%
GAGTAAGGATGAGATTGAGA+AGG - chr5.2:14238575-14238594 None:intergenic 40.0%
GGAAGAATTGTTGGATGGTT+CGG + chr5.2:14238775-14238794 MS.gene67586:CDS 40.0%
GGATATATGTGGCATCACAA+GGG + chr5.2:14238808-14238827 MS.gene67586:CDS 40.0%
GGTAACATGTGAAGAGAACA+TGG + chr5.2:14239180-14239199 MS.gene67586:CDS 40.0%
TGGATATATGTGGCATCACA+AGG + chr5.2:14238807-14238826 MS.gene67586:CDS 40.0%
GAAAACTGTTTGAGCGGACA+TGG - chr5.2:14238553-14238572 None:intergenic 45.0%
TTCAAGAAAGGAAAGGCCAG+TGG - chr5.2:14238672-14238691 None:intergenic 45.0%
! GGCTTCCCATGTCTTGATTT+TGG - chr5.2:14238621-14238640 None:intergenic 45.0%
!!! GGATGGTTCGGTGAAAGTTT+TGG + chr5.2:14238787-14238806 MS.gene67586:CDS 45.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 14238533 14239393 14238533 ID=MS.gene67586
chr5.2 mRNA 14238533 14239393 14238533 ID=MS.gene67586.t1;Parent=MS.gene67586
chr5.2 exon 14238533 14239393 14238533 ID=MS.gene67586.t1.exon1;Parent=MS.gene67586.t1
chr5.2 CDS 14238533 14239393 14238533 ID=cds.MS.gene67586.t1;Parent=MS.gene67586.t1
Gene Sequence

>MS.gene67586

ATGGCAAGCAACAATTACCATGTCCGCTCAAACAGTTTTCCTTCTCAATCTCATCCTTACTCCACTAGAATTGAACAAGAGTTAACCAAAATCAAGACATGGGAAGCCACATCAACATCCACATCTGATTCAATTACCACTGGCCTTTCCTTTCTTGAAGATTTGTATATTTCTTTGGAAGATCTTCTCAATATGTCATCAATACAAAAGGCTATATCTCACCATCAAGGTGAAAAAATTGTGGAAGAATTGTTGGATGGTTCGGTGAAAGTTTTGGATATATGTGGCATCACAAGGGAAACCATGTTACAGATTAAAGAAAATGTTCAATCACTTCACTCTTCTCTTAGAAGGAGAAAGGGAGAATCAAGCATTGAAAAAAGTGTAGCCGAATATAAACTCTTCACAAAGAAGATGAAGAAGAATGTCACAAAGTTGATCACATCTTTAAAACATATGGAAACTAAATTTGGAGCTTCCTCACTTTTGAATCAAGATCAAGACCTTGTTGCAGTCATTACAGTTCTTAGAGAGGTCATTAAAATGAACTTGTCTATCTTTCAATCTGTTTTGTCTTTCTTGGTTGGATCTTCATCAAAGTCAAAGGCAACAAAATGGTTGAAAGTGACAAAGTTGATGCAAAAGAGGGTAACATGTGAAGAGAACATGGTGAATTTCAATGAATTGCAGTGTGTCGAAGCATCTTTAAGAACCCTTTCAAGTGAAGGTTCAAATGTTGCACATGAAAGATTTGAGGCTTTGGAGAATGCAACTGAAATGATAGAAAATGGTTTAGAGAATATATTTAGGAGATTAGTTAAAACTAGAGTTTGTCTTTTGAACATTATGACTCTATCTTAG
Protein sequence

>MS.gene67586.t1

MASNNYHVRSNSFPSQSHPYSTRIEQELTKIKTWEATSTSTSDSITTGLSFLEDLYISLEDLLNMSSIQKAISHHQGEKIVEELLDGSVKVLDICGITRETMLQIKENVQSLHSSLRRRKGESSIEKSVAEYKLFTKKMKKNVTKLITSLKHMETKFGASSLLNQDQDLVAVITVLREVIKMNLSIFQSVLSFLVGSSSKSKATKWLKVTKLMQKRVTCEENMVNFNELQCVEASLRTLSSEGSNVAHERFEALENATEMIENGLENIFRRLVKTRVCLLNIMTLS