AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67538

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67538.t1 MTR_5g023340 93.706 286 18 0 1 286 1 286 0.0 518
MS.gene67538.t1 MTR_5g023350 93.357 286 19 0 1 286 1 286 0.0 514
MS.gene67538.t1 MTR_5g023390 90.210 286 28 0 1 286 1 286 0.0 506
MS.gene67538.t1 MTR_5g023370 90.210 286 28 0 1 286 1 286 0.0 505
MS.gene67538.t1 MTR_5g023600 90.909 286 26 0 1 286 1 286 0.0 502
MS.gene67538.t1 MTR_5g023530 88.850 287 31 1 1 286 1 287 2.14e-177 491
MS.gene67538.t1 MTR_5g023320 88.070 285 30 2 1 284 1 282 3.81e-175 484
MS.gene67538.t1 MTR_5g023470 87.805 287 34 1 1 286 1 287 5.08e-175 484
MS.gene67538.t1 MTR_5g023520 88.421 285 31 2 1 284 1 284 1.76e-174 483
MS.gene67538.t1 MTR_5g023550 87.324 284 35 1 1 284 1 283 3.94e-172 477
MS.gene67538.t1 MTR_5g023580 84.266 286 41 2 1 282 1 286 1.63e-164 461
MS.gene67538.t1 MTR_8g074450 67.596 287 87 2 4 284 3 289 7.34e-136 385
MS.gene67538.t1 MTR_8g074510 64.561 285 93 3 6 284 5 287 3.98e-128 366
MS.gene67538.t1 MTR_8g074420 65.625 288 93 2 3 284 2 289 8.54e-127 362
MS.gene67538.t1 MTR_5g023460 88.108 185 18 1 100 284 11 191 3.93e-113 324
MS.gene67538.t1 MTR_8g074530 42.561 289 158 5 3 284 17 304 5.77e-63 201
MS.gene67538.t1 MTR_5g023290 36.667 300 172 4 3 284 9 308 1.57e-53 176
MS.gene67538.t1 MTR_5g023410 90.909 99 9 0 3 101 2 100 1.33e-51 168
MS.gene67538.t1 MTR_8g074380 35.374 294 164 6 1 285 7 283 7.90e-46 157
MS.gene67538.t1 MTR_5g023650 34.247 292 176 5 8 284 14 304 3.25e-42 147
MS.gene67538.t1 MTR_4g070530 32.979 282 184 3 7 283 13 294 4.84e-42 146
MS.gene67538.t1 MTR_3g116950 34.495 287 177 6 5 283 11 294 2.15e-39 139
MS.gene67538.t1 MTR_4g070570 30.508 295 188 8 2 283 11 301 5.61e-37 133
MS.gene67538.t1 MTR_4g070540 32.155 283 185 4 7 283 13 294 1.50e-36 132
MS.gene67538.t1 MTR_4g070590 33.788 293 179 7 3 283 10 299 1.08e-35 130
MS.gene67538.t1 MTR_3g116920 32.877 292 177 8 5 283 11 296 3.94e-34 125
MS.gene67538.t1 MTR_1g037820 30.041 243 134 5 52 284 9 225 1.20e-25 101
MS.gene67538.t1 MTR_3g115150 27.303 304 185 10 6 286 27 317 1.32e-21 92.8
MS.gene67538.t1 MTR_5g023540 52.941 68 29 1 163 230 1 65 5.62e-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.gene67538.t1 AT4G35690 37.282 287 159 8 7 284 9 283 1.13e-51 171
MS.gene67538.t1 AT2G17680 37.329 292 160 9 7 284 9 291 1.98e-45 155
MS.gene67538.t1 AT2G17080 35.000 280 159 6 5 283 4 261 9.23e-43 147
MS.gene67538.t1 AT2G17070 34.532 278 159 6 5 281 4 259 3.30e-40 140
MS.gene67538.t1 AT4G35710 34.256 289 164 7 7 284 9 282 4.74e-40 141
MS.gene67538.t1 AT4G35200 32.975 279 157 8 5 282 4 253 3.47e-39 138
MS.gene67538.t1 AT4G35210 32.616 279 155 8 5 282 4 250 7.52e-37 132
MS.gene67538.t1 AT4G35680 32.000 300 173 9 8 284 18 309 1.02e-26 106
MS.gene67538.t1 AT4G35720 30.794 315 178 8 6 284 14 324 2.08e-23 97.8
MS.gene67538.t1 AT1G76240 28.328 293 184 9 5 284 28 307 4.83e-23 96.7
MS.gene67538.t1 AT4G35660 29.605 304 171 10 1 285 9 288 9.00e-22 92.8
MS.gene67538.t1 AT3G51400 30.612 294 169 10 5 285 4 275 8.87e-19 84.3
MS.gene67538.t1 AT1G76210 28.636 220 132 7 69 284 27 225 6.27e-16 75.5
MS.gene67538.t1 AT3G51410 31.786 280 149 9 8 284 39 279 1.16e-14 72.8
MS.gene67538.t1 AT1G20520 26.939 245 144 7 48 284 8 225 4.12e-13 67.8
MS.gene67538.t1 AT1G76220 26.621 293 165 8 2 285 5 256 1.24e-11 63.9

Find 41 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 5.4:-15095344 MS.gene67538:CDS
GGCTTCCCATGTCTTGATTT+TGG 0.226979 5.4:+15095709 None:intergenic
TGAAGATTTGTATATTTCTT+TGG 0.280108 5.4:-15095639 MS.gene67538:CDS
GCAACTGAAATGATAGAAAA+TGG 0.294687 5.4:-15095026 MS.gene67538:CDS
CTTTGTGAAGAGTTTATATT+CGG 0.333272 5.4:+15095406 None:intergenic
CACTTCACTCTTCTCTTAGA+AGG 0.337508 5.4:-15095463 MS.gene67538:CDS
GATCACATCTTTAAAACATA+TGG 0.374642 5.4:-15095357 MS.gene67538:CDS
GGATGGTTCGGTGAAAGTTT+TGG 0.395778 5.4:-15095540 MS.gene67538:CDS
ATGGTTTAGAGAATATATTT+AGG 0.402535 5.4:-15095007 MS.gene67538:CDS
CAAAGTCAAAGGCAACAAAA+TGG 0.408302 5.4:-15095199 MS.gene67538:CDS
ACATGAAAGATTTGAGGCTT+TGG 0.411831 5.4:-15095054 MS.gene67538:CDS
CATTTGAACCTTCACTTGAA+AGG 0.414722 5.4:+15095081 None:intergenic
CTCTTCTCTTAGAAGGAGAA+AGG 0.427476 5.4:-15095456 MS.gene67538:CDS
ATTTGAACCTTCACTTGAAA+GGG 0.433756 5.4:+15095082 None:intergenic
TGTTGCACATGAAAGATTTG+AGG 0.457835 5.4:-15095060 MS.gene67538:CDS
CAATATGTCATCAATACAAA+AGG 0.468624 5.4:-15095606 MS.gene67538:CDS
GGAAGAATTGTTGGATGGTT+CGG 0.474552 5.4:-15095552 MS.gene67538:CDS
AATATACAAATCTTCAAGAA+AGG 0.505581 5.4:+15095646 None:intergenic
TGACAAAGTTGATGCAAAAG+AGG 0.510512 5.4:-15095169 MS.gene67538:CDS
TTAAGAACCCTTTCAAGTGA+AGG 0.514521 5.4:-15095089 MS.gene67538:CDS
TGGATATATGTGGCATCACA+AGG 0.532845 5.4:-15095520 MS.gene67538:CDS
GAGTTAGGATGAGATTGAGA+AGG 0.535434 5.4:+15095755 None:intergenic
TCTTCTCTTAGAAGGAGAAA+GGG 0.543836 5.4:-15095455 MS.gene67538:CDS
GAAAACTGTTTGAGCGGACA+TGG 0.545024 5.4:+15095777 None:intergenic
ACATCTGATTCAATTACCAC+TGG 0.584960 5.4:-15095674 MS.gene67538:CDS
TGGATCTTCATCAAAGTCAA+AGG 0.588491 5.4:-15095210 MS.gene67538:CDS
GACAAAGTTGATGCAAAAGA+GGG 0.591207 5.4:-15095168 MS.gene67538:CDS
ACAAATCTTCAAGAAAGGAA+AGG 0.601275 5.4:+15095651 None:intergenic
TTGATCTTGATTCAAAAGTG+AGG 0.609457 5.4:+15095316 None:intergenic
ATCAGATGTGGATGTTGATG+TGG 0.611639 5.4:+15095688 None:intergenic
ATTGTGGAAGAATTGTTGGA+TGG 0.613251 5.4:-15095557 MS.gene67538:CDS
AAGGCTATATCTCACCATCA+AGG 0.613728 5.4:-15095587 MS.gene67538:CDS
AGTCATTACAGTTCTTAGAG+AGG 0.614040 5.4:-15095282 MS.gene67538:CDS
AGTTAACCAAAATCAAGACA+TGG 0.616346 5.4:-15095715 MS.gene67538:CDS
GGTAACATGTGAAGAGAACA+TGG 0.618682 5.4:-15095147 MS.gene67538:CDS
GAGAAGGAAAACTGTTTGAG+CGG 0.618730 5.4:+15095771 None:intergenic
GTTAACCAAAATCAAGACAT+GGG 0.625458 5.4:-15095714 MS.gene67538:CDS
TTCAAGAAAGGAAAGGCCAG+TGG 0.658882 5.4:+15095658 None:intergenic
AGTGGTAATTGAATCAGATG+TGG 0.659124 5.4:+15095676 None:intergenic
GAACTGTAATGACTGCAACA+AGG 0.659986 5.4:+15095291 None:intergenic
GGATATATGTGGCATCACAA+GGG 0.671330 5.4:-15095519 MS.gene67538:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACATATGGAAACTAAATT+TGG - chr5.4:15095406-15095425 MS.gene67538:CDS 20.0%
!! AATATACAAATCTTCAAGAA+AGG + chr5.4:15095107-15095126 None:intergenic 20.0%
!! ATGGTTTAGAGAATATATTT+AGG - chr5.4:15095743-15095762 MS.gene67538:CDS 20.0%
!! TGAAGATTTGTATATTTCTT+TGG - chr5.4:15095111-15095130 MS.gene67538:CDS 20.0%
!!! ATTTTCTTTAATCTGTAACA+TGG + chr5.4:15095260-15095279 None:intergenic 20.0%
! AAAAATTGTGGAAGAATTGT+TGG - chr5.4:15095189-15095208 MS.gene67538:CDS 25.0%
! CAATATGTCATCAATACAAA+AGG - chr5.4:15095144-15095163 MS.gene67538:CDS 25.0%
! CTTTGTGAAGAGTTTATATT+CGG + chr5.4:15095347-15095366 None:intergenic 25.0%
!! TAACTCTTGTTCAATTTTAG+TGG + chr5.4:15095020-15095039 None:intergenic 25.0%
!!! GATCACATCTTTAAAACATA+TGG - chr5.4:15095393-15095412 MS.gene67538:CDS 25.0%
ACAAATCTTCAAGAAAGGAA+AGG + chr5.4:15095102-15095121 None:intergenic 30.0%
AGTTAACCAAAATCAAGACA+TGG - chr5.4:15095035-15095054 MS.gene67538:CDS 30.0%
ATTTGAACCTTCACTTGAAA+GGG + chr5.4:15095671-15095690 None:intergenic 30.0%
GCAACTGAAATGATAGAAAA+TGG - chr5.4:15095724-15095743 MS.gene67538:CDS 30.0%
GTTAACCAAAATCAAGACAT+GGG - chr5.4:15095036-15095055 MS.gene67538:CDS 30.0%
TTGATCTTGATTCAAAAGTG+AGG + chr5.4:15095437-15095456 None:intergenic 30.0%
! TCAATCTGTTTTGTCTTTCT+TGG - chr5.4:15095516-15095535 MS.gene67538:CDS 30.0%
!! TGTTCAATTTTAGTGGAGTT+AGG + chr5.4:15095013-15095032 None:intergenic 30.0%
!!! GTGAAAGTTTTGGATATATG+TGG - chr5.4:15095220-15095239 MS.gene67538:CDS 30.0%
ACATCTGATTCAATTACCAC+TGG - chr5.4:15095076-15095095 MS.gene67538:CDS 35.0%
AGTCATTACAGTTCTTAGAG+AGG - chr5.4:15095468-15095487 MS.gene67538:CDS 35.0%
AGTGGTAATTGAATCAGATG+TGG + chr5.4:15095077-15095096 None:intergenic 35.0%
ATTGTGGAAGAATTGTTGGA+TGG - chr5.4:15095193-15095212 MS.gene67538:CDS 35.0%
CAAAGTCAAAGGCAACAAAA+TGG - chr5.4:15095551-15095570 MS.gene67538:CDS 35.0%
CATTTGAACCTTCACTTGAA+AGG + chr5.4:15095672-15095691 None:intergenic 35.0%
CCATCAAGGTGAAAAAATTG+TGG - chr5.4:15095177-15095196 MS.gene67538:CDS 35.0%
TCTTCTCTTAGAAGGAGAAA+GGG - chr5.4:15095295-15095314 MS.gene67538:CDS 35.0%
TGGATCTTCATCAAAGTCAA+AGG - chr5.4:15095540-15095559 MS.gene67538:CDS 35.0%
TGTTGCACATGAAAGATTTG+AGG - chr5.4:15095690-15095709 MS.gene67538:CDS 35.0%
! ACATGAAAGATTTGAGGCTT+TGG - chr5.4:15095696-15095715 MS.gene67538:CDS 35.0%
! TCTGTTTTGTCTTTCTTGGT+TGG - chr5.4:15095520-15095539 MS.gene67538:CDS 35.0%
! TTAAGAACCCTTTCAAGTGA+AGG - chr5.4:15095661-15095680 MS.gene67538:CDS 35.0%
!! GACAAAGTTGATGCAAAAGA+GGG - chr5.4:15095582-15095601 MS.gene67538:CDS 35.0%
!! TGACAAAGTTGATGCAAAAG+AGG - chr5.4:15095581-15095600 MS.gene67538:CDS 35.0%
!!! CCACAATTTTTTCACCTTGA+TGG + chr5.4:15095180-15095199 None:intergenic 35.0%
AAGGCTATATCTCACCATCA+AGG - chr5.4:15095163-15095182 MS.gene67538:CDS 40.0%
ATCAGATGTGGATGTTGATG+TGG + chr5.4:15095065-15095084 None:intergenic 40.0%
CACTTCACTCTTCTCTTAGA+AGG - chr5.4:15095287-15095306 MS.gene67538:CDS 40.0%
CTCTTCTCTTAGAAGGAGAA+AGG - chr5.4:15095294-15095313 MS.gene67538:CDS 40.0%
GAACTGTAATGACTGCAACA+AGG + chr5.4:15095462-15095481 None:intergenic 40.0%
GAGAAGGAAAACTGTTTGAG+CGG + chr5.4:15094982-15095001 None:intergenic 40.0%
GAGTTAGGATGAGATTGAGA+AGG + chr5.4:15094998-15095017 None:intergenic 40.0%
GGAAGAATTGTTGGATGGTT+CGG - chr5.4:15095198-15095217 MS.gene67538:CDS 40.0%
GGATATATGTGGCATCACAA+GGG - chr5.4:15095231-15095250 MS.gene67538:CDS 40.0%
GGTAACATGTGAAGAGAACA+TGG - chr5.4:15095603-15095622 MS.gene67538:CDS 40.0%
TGGATATATGTGGCATCACA+AGG - chr5.4:15095230-15095249 MS.gene67538:CDS 40.0%
GAAAACTGTTTGAGCGGACA+TGG + chr5.4:15094976-15094995 None:intergenic 45.0%
TTCAAGAAAGGAAAGGCCAG+TGG + chr5.4:15095095-15095114 None:intergenic 45.0%
! GGCTTCCCATGTCTTGATTT+TGG + chr5.4:15095044-15095063 None:intergenic 45.0%
!!! GGATGGTTCGGTGAAAGTTT+TGG - chr5.4:15095210-15095229 MS.gene67538:CDS 45.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 15094956 15095816 15094956 ID=MS.gene67538
chr5.4 mRNA 15094956 15095816 15094956 ID=MS.gene67538.t1;Parent=MS.gene67538
chr5.4 exon 15094956 15095816 15094956 ID=MS.gene67538.t1.exon1;Parent=MS.gene67538.t1
chr5.4 CDS 15094956 15095816 15094956 ID=cds.MS.gene67538.t1;Parent=MS.gene67538.t1
Gene Sequence

>MS.gene67538

ATGGCAAGCAACAATTACCATGTCCGCTCAAACAGTTTTCCTTCTCAATCTCATCCTAACTCCACTAAAATTGAACAAGAGTTAACCAAAATCAAGACATGGGAAGCCACATCAACATCCACATCTGATTCAATTACCACTGGCCTTTCCTTTCTTGAAGATTTGTATATTTCTTTGGAAGATCTTCTCAATATGTCATCAATACAAAAGGCTATATCTCACCATCAAGGTGAAAAAATTGTGGAAGAATTGTTGGATGGTTCGGTGAAAGTTTTGGATATATGTGGCATCACAAGGGAAACCATGTTACAGATTAAAGAAAATGTTCAATCACTTCACTCTTCTCTTAGAAGGAGAAAGGGAGAATCAAGCATTGAAAAAAGTGTAGCCGAATATAAACTCTTCACAAAGAAGATGAAGAAGAATGTCACAAAGTTGATCACATCTTTAAAACATATGGAAACTAAATTTGGAGCTTCCTCACTTTTGAATCAAGATCAAGACCTTGTTGCAGTCATTACAGTTCTTAGAGAGGTCATTAAAATGAACTTGTCTATCTTTCAATCTGTTTTGTCTTTCTTGGTTGGATCTTCATCAAAGTCAAAGGCAACAAAATGGTTGAAAGTGACAAAGTTGATGCAAAAGAGGGTAACATGTGAAGAGAACATGGTGAATTTCAATGAATTGCAGTGTGTCGAAGCATCTTTAAGAACCCTTTCAAGTGAAGGTTCAAATGTTGCACATGAAAGATTTGAGGCTTTGGAGAATGCAACTGAAATGATAGAAAATGGTTTAGAGAATATATTTAGGAGATTAGTTAAAACTAGAGTTTGTCTTTTGAACATTATGACTCTATCTTAG
Protein sequence

>MS.gene67538.t1

MASNNYHVRSNSFPSQSHPNSTKIEQELTKIKTWEATSTSTSDSITTGLSFLEDLYISLEDLLNMSSIQKAISHHQGEKIVEELLDGSVKVLDICGITRETMLQIKENVQSLHSSLRRRKGESSIEKSVAEYKLFTKKMKKNVTKLITSLKHMETKFGASSLLNQDQDLVAVITVLREVIKMNLSIFQSVLSFLVGSSSKSKATKWLKVTKLMQKRVTCEENMVNFNELQCVEASLRTLSSEGSNVAHERFEALENATEMIENGLENIFRRLVKTRVCLLNIMTLS