AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67537

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67537.t1 MTR_5g023550 91.166 283 25 0 1 283 1 283 0.0 504
MS.gene67537.t1 MTR_5g023390 89.510 286 29 1 1 285 1 286 0.0 501
MS.gene67537.t1 MTR_5g023370 89.510 286 29 1 1 285 1 286 1.43e-180 498
MS.gene67537.t1 MTR_5g023350 89.510 286 29 1 1 285 1 286 2.37e-180 498
MS.gene67537.t1 MTR_5g023520 88.732 284 31 1 1 283 1 284 1.81e-179 496
MS.gene67537.t1 MTR_5g023600 89.510 286 29 1 1 285 1 286 2.17e-179 496
MS.gene67537.t1 MTR_5g023530 88.028 284 33 1 3 285 4 287 6.65e-177 489
MS.gene67537.t1 MTR_5g023340 87.762 286 34 1 1 285 1 286 3.78e-176 487
MS.gene67537.t1 MTR_5g023470 86.972 284 36 1 3 285 4 287 1.38e-174 483
MS.gene67537.t1 MTR_5g023320 86.667 285 33 3 1 283 1 282 3.27e-171 475
MS.gene67537.t1 MTR_5g023580 82.517 286 45 3 1 281 1 286 1.44e-157 443
MS.gene67537.t1 MTR_8g074450 67.820 289 87 2 1 283 1 289 4.63e-137 389
MS.gene67537.t1 MTR_8g074510 66.090 289 90 3 1 283 1 287 3.74e-134 381
MS.gene67537.t1 MTR_8g074420 66.782 289 90 2 1 283 1 289 4.29e-130 371
MS.gene67537.t1 MTR_5g023460 83.243 185 27 1 99 283 11 191 1.73e-109 315
MS.gene67537.t1 MTR_8g074530 45.172 290 149 5 2 283 17 304 1.49e-69 218
MS.gene67537.t1 MTR_5g023290 37.000 300 171 5 2 283 9 308 6.77e-58 187
MS.gene67537.t1 MTR_5g023410 91.000 100 9 0 1 100 1 100 3.73e-53 172
MS.gene67537.t1 MTR_5g023650 36.301 292 170 4 7 283 14 304 4.07e-48 162
MS.gene67537.t1 MTR_8g074380 35.540 287 159 6 7 284 14 283 1.06e-46 159
MS.gene67537.t1 MTR_4g070530 33.333 288 187 3 1 283 8 295 1.43e-45 155
MS.gene67537.t1 MTR_3g116950 36.426 291 168 10 3 282 10 294 1.04e-41 145
MS.gene67537.t1 MTR_4g070540 33.101 287 185 4 3 283 10 295 2.78e-41 144
MS.gene67537.t1 MTR_4g070590 35.417 288 173 7 6 282 14 299 8.68e-40 140
MS.gene67537.t1 MTR_4g070570 31.399 293 184 8 3 282 13 301 1.70e-39 140
MS.gene67537.t1 MTR_3g116920 35.154 293 171 9 3 282 10 296 6.02e-38 135
MS.gene67537.t1 MTR_3g115150 28.808 302 183 8 5 285 27 317 7.17e-28 109
MS.gene67537.t1 MTR_1g037820 31.197 234 143 5 51 283 9 225 1.84e-25 101
MS.gene67537.t1 MTR_5g023540 52.941 68 29 1 162 229 1 65 3.23e-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.gene67537.t1 AT4G35690 38.754 289 162 7 1 283 4 283 4.49e-55 180
MS.gene67537.t1 AT2G17680 39.203 301 152 10 1 283 4 291 1.40e-49 166
MS.gene67537.t1 AT2G17080 36.396 283 157 6 1 282 1 261 4.68e-47 158
MS.gene67537.t1 AT2G17070 35.943 281 157 6 1 280 1 259 1.14e-44 152
MS.gene67537.t1 AT4G35200 34.752 282 154 7 1 281 1 253 1.61e-44 152
MS.gene67537.t1 AT4G35710 36.735 294 160 7 1 283 4 282 2.85e-42 147
MS.gene67537.t1 AT4G35210 33.333 282 155 7 1 281 1 250 1.42e-40 141
MS.gene67537.t1 AT4G35720 32.698 315 172 9 5 283 14 324 4.86e-27 107
MS.gene67537.t1 AT4G35660 30.743 296 162 9 8 284 17 288 1.84e-24 100
MS.gene67537.t1 AT4G35680 30.435 299 179 9 7 283 18 309 8.05e-23 96.3
MS.gene67537.t1 AT1G76240 27.304 293 185 7 5 283 29 307 8.18e-23 95.9
MS.gene67537.t1 AT3G51400 31.313 297 169 10 1 284 1 275 6.51e-20 87.4
MS.gene67537.t1 AT1G76210 29.237 236 124 6 61 283 20 225 1.63e-19 85.5
MS.gene67537.t1 AT3G51410 31.786 280 149 9 7 283 39 279 1.04e-15 75.9
MS.gene67537.t1 AT1G20520 27.126 247 141 8 47 283 8 225 3.83e-14 70.5

Find 47 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAACATATGGAAAGTAAATT+TGG 0.150071 5.4:-15088777 MS.gene67537:CDS
CATTAGAACCTTCACTTATA+AGG 0.159224 5.4:+15088514 None:intergenic
GAACATCATAACTCTATCTT+AGG 0.176855 5.4:-15088388 None:intergenic
GCAATTGAAAGTATAGAAAA+TGG 0.264764 5.4:-15088459 MS.gene67537:CDS
CTTTGTCACTTTCAACCATT+TGG 0.324091 5.4:+15088617 None:intergenic
ATTAGAACCTTCACTTATAA+GGG 0.348108 5.4:+15088515 None:intergenic
AGAGAATATATTTAGGCGTT+TGG 0.352912 5.4:-15088433 MS.gene67537:CDS
TGAAGATTTGTATATTTCAT+TGG 0.354547 5.4:-15089072 MS.gene67537:CDS
GATCACATCTTTAAAACATA+TGG 0.374642 5.4:-15088790 MS.gene67537:CDS
CACTTCACTCCGCTCTTAGA+AGG 0.374965 5.4:-15088896 MS.gene67537:CDS
TGTTCAATTCTAGTGGTGCT+TGG 0.418571 5.4:+15089173 None:intergenic
GAAAATTGTGGAAGAGTTGT+TGG 0.420097 5.4:-15088994 MS.gene67537:CDS
ACACGAAAGATTTGAGGCTT+TGG 0.432633 5.4:-15088487 MS.gene67537:CDS
GGAAGAGTTGTTGGATGGTT+CGG 0.441396 5.4:-15088985 MS.gene67537:CDS
ATGGTTTAGAGAATATATTT+AGG 0.442461 5.4:-15088440 MS.gene67537:CDS
TGTTGCACACGAAAGATTTG+AGG 0.458192 5.4:-15088493 MS.gene67537:CDS
AACATCATAACTCTATCTTA+GGG 0.471922 5.4:-15088387 None:intergenic
CTCACCTTGATGGTGAGAAA+CGG 0.477848 5.4:+15089016 None:intergenic
CTCCGCTCTTAGAAGGAGAA+AGG 0.483537 5.4:-15088889 MS.gene67537:CDS
ACATATGTCATCAACACAAA+AGG 0.492531 5.4:-15089039 MS.gene67537:CDS
TAACTCTTGTTCAATTCTAG+TGG 0.494436 5.4:+15089166 None:intergenic
ACAAATCTTCAAGAAAGAAA+AGG 0.508287 5.4:+15089084 None:intergenic
TGACAAAGTTGATGCAAAAG+AGG 0.510512 5.4:-15088602 MS.gene67537:CDS
AGATTTGTATATTTCATTGG+AGG 0.519503 5.4:-15089069 MS.gene67537:CDS
TCCGCTCTTAGAAGGAGAAA+GGG 0.536323 5.4:-15088888 MS.gene67537:CDS
TAGATATATGTGGCATCACA+AGG 0.540397 5.4:-15088953 MS.gene67537:CDS
TTGAGAACCCTTATAAGTGA+AGG 0.541465 5.4:-15088522 MS.gene67537:CDS
CCATCAAGGTGAGAAAATTG+TGG 0.548327 5.4:-15089006 MS.gene67537:CDS
TTCAAGAAAGAAAAGGCCAT+TGG 0.559275 5.4:+15089091 None:intergenic
GGTATCATGTGAAGAGAACA+TGG 0.559553 5.4:-15088580 MS.gene67537:CDS
CAAAGTCAAAGGCAACCAAA+TGG 0.562903 5.4:-15088632 MS.gene67537:CDS
GAAAACTATTTGAGCGAACA+TGG 0.573814 5.4:+15089210 None:intergenic
TGGATCTTCATCAAAGTCAA+AGG 0.588491 5.4:-15088643 MS.gene67537:CDS
GACAAAGTTGATGCAAAAGA+GGG 0.591207 5.4:-15088601 MS.gene67537:CDS
TCCCTTTCTCCTTCTAAGAG+CGG 0.591308 5.4:+15088887 None:intergenic
ATTGTGGAAGAGTTGTTGGA+TGG 0.606512 5.4:-15088990 MS.gene67537:CDS
TTTCAATGAATTGCAGTGTG+TGG 0.611573 5.4:-15088553 MS.gene67537:CDS
ATCAGATGTGGATGTTGATG+TGG 0.611639 5.4:+15089121 None:intergenic
AATTATTCACAAAGAAGATG+AGG 0.613338 5.4:-15088830 MS.gene67537:CDS
TGTGATTACAGTTCTTAGAG+AGG 0.616682 5.4:-15088715 MS.gene67537:CDS
ACATCTGATTCAATTACCAA+TGG 0.619749 5.4:-15089107 MS.gene67537:CDS
ATTGGTAATTGAATCAGATG+TGG 0.626315 5.4:+15089109 None:intergenic
AAGGCCGTTTCTCACCATCA+AGG 0.642576 5.4:-15089020 MS.gene67537:CDS
TTGATCTTGATCTAATAGTG+AGG 0.655843 5.4:+15088749 None:intergenic
GAACTGTAATCACAGCAACA+AGG 0.656672 5.4:+15088724 None:intergenic
AGATATATGTGGCATCACAA+GGG 0.670882 5.4:-15088952 MS.gene67537:CDS
GTGCTTGGATGAGATTGAGA+AGG 0.684385 5.4:+15089188 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACATATGGAAAGTAAATT+TGG - chr5.4:15088836-15088855 MS.gene67537:CDS 20.0%
!! ATGGTTTAGAGAATATATTT+AGG - chr5.4:15089173-15089192 MS.gene67537:CDS 20.0%
!! TGAAGATTTGTATATTTCAT+TGG - chr5.4:15088541-15088560 MS.gene67537:CDS 20.0%
!!! ATTTTCTTTAATCTGTAACA+TGG + chr5.4:15088690-15088709 None:intergenic 20.0%
! AATTATTCACAAAGAAGATG+AGG - chr5.4:15088783-15088802 MS.gene67537:CDS 25.0%
! ACAAATCTTCAAGAAAGAAA+AGG + chr5.4:15088532-15088551 None:intergenic 25.0%
! AGATTTGTATATTTCATTGG+AGG - chr5.4:15088544-15088563 MS.gene67537:CDS 25.0%
! AGTTAACAAAAATGAAGACA+TGG - chr5.4:15088465-15088484 MS.gene67537:CDS 25.0%
! ATTAGAACCTTCACTTATAA+GGG + chr5.4:15089101-15089120 None:intergenic 25.0%
! GTTAACAAAAATGAAGACAT+GGG - chr5.4:15088466-15088485 MS.gene67537:CDS 25.0%
!! GCAATTGAAAGTATAGAAAA+TGG - chr5.4:15089154-15089173 MS.gene67537:CDS 25.0%
!! GTGAAACTTTTAGATATATG+TGG - chr5.4:15088650-15088669 MS.gene67537:CDS 25.0%
!!! GATCACATCTTTAAAACATA+TGG - chr5.4:15088823-15088842 MS.gene67537:CDS 25.0%
!!! TCAATCTGTTTTTTCTTTCT+TGG - chr5.4:15088946-15088965 MS.gene67537:CDS 25.0%
ACATATGTCATCAACACAAA+AGG - chr5.4:15088574-15088593 MS.gene67537:CDS 30.0%
ACATCTGATTCAATTACCAA+TGG - chr5.4:15088506-15088525 MS.gene67537:CDS 30.0%
AGAGAATATATTTAGGCGTT+TGG - chr5.4:15089180-15089199 MS.gene67537:CDS 30.0%
CATTAGAACCTTCACTTATA+AGG + chr5.4:15089102-15089121 None:intergenic 30.0%
TAACTCTTGTTCAATTCTAG+TGG + chr5.4:15088450-15088469 None:intergenic 30.0%
TTGATCTTGATCTAATAGTG+AGG + chr5.4:15088867-15088886 None:intergenic 30.0%
! ATTGGTAATTGAATCAGATG+TGG + chr5.4:15088507-15088526 None:intergenic 30.0%
!!! TCTGTTTTTTCTTTCTTGGT+TGG - chr5.4:15088950-15088969 MS.gene67537:CDS 30.0%
AGATATATGTGGCATCACAA+GGG - chr5.4:15088661-15088680 MS.gene67537:CDS 35.0%
GAAAACTATTTGAGCGAACA+TGG + chr5.4:15088406-15088425 None:intergenic 35.0%
GAAAATTGTGGAAGAGTTGT+TGG - chr5.4:15088619-15088638 MS.gene67537:CDS 35.0%
TAGATATATGTGGCATCACA+AGG - chr5.4:15088660-15088679 MS.gene67537:CDS 35.0%
TGGATCTTCATCAAAGTCAA+AGG - chr5.4:15088970-15088989 MS.gene67537:CDS 35.0%
TGTGATTACAGTTCTTAGAG+AGG - chr5.4:15088898-15088917 MS.gene67537:CDS 35.0%
TTCAAGAAAGAAAAGGCCAT+TGG + chr5.4:15088525-15088544 None:intergenic 35.0%
TTGAGAACCCTTATAAGTGA+AGG - chr5.4:15089091-15089110 MS.gene67537:CDS 35.0%
TTTCAATGAATTGCAGTGTG+TGG - chr5.4:15089060-15089079 MS.gene67537:CDS 35.0%
!! CTTTGTCACTTTCAACCATT+TGG + chr5.4:15088999-15089018 None:intergenic 35.0%
!! GACAAAGTTGATGCAAAAGA+GGG - chr5.4:15089012-15089031 MS.gene67537:CDS 35.0%
!! TGACAAAGTTGATGCAAAAG+AGG - chr5.4:15089011-15089030 MS.gene67537:CDS 35.0%
ATCAGATGTGGATGTTGATG+TGG + chr5.4:15088495-15088514 None:intergenic 40.0%
ATTGTGGAAGAGTTGTTGGA+TGG - chr5.4:15088623-15088642 MS.gene67537:CDS 40.0%
CAAAGTCAAAGGCAACCAAA+TGG - chr5.4:15088981-15089000 MS.gene67537:CDS 40.0%
CCATCAAGGTGAGAAAATTG+TGG - chr5.4:15088607-15088626 MS.gene67537:CDS 40.0%
GAACTGTAATCACAGCAACA+AGG + chr5.4:15088892-15088911 None:intergenic 40.0%
GGTATCATGTGAAGAGAACA+TGG - chr5.4:15089033-15089052 MS.gene67537:CDS 40.0%
TGTTCAATTCTAGTGGTGCT+TGG + chr5.4:15088443-15088462 None:intergenic 40.0%
TGTTGCACACGAAAGATTTG+AGG - chr5.4:15089120-15089139 MS.gene67537:CDS 40.0%
! ACACGAAAGATTTGAGGCTT+TGG - chr5.4:15089126-15089145 MS.gene67537:CDS 40.0%
! CCACAATTTTCTCACCTTGA+TGG + chr5.4:15088610-15088629 None:intergenic 40.0%
GGAAGAGTTGTTGGATGGTT+CGG - chr5.4:15088628-15088647 MS.gene67537:CDS 45.0%
GTGCTTGGATGAGATTGAGA+AGG + chr5.4:15088428-15088447 None:intergenic 45.0%
TCCGCTCTTAGAAGGAGAAA+GGG - chr5.4:15088725-15088744 MS.gene67537:CDS 45.0%
! TCCCTTTCTCCTTCTAAGAG+CGG + chr5.4:15088729-15088748 None:intergenic 45.0%
!! CTCACCTTGATGGTGAGAAA+CGG + chr5.4:15088600-15088619 None:intergenic 45.0%
AAGGCCGTTTCTCACCATCA+AGG - chr5.4:15088593-15088612 MS.gene67537:CDS 50.0%
CACTTCACTCCGCTCTTAGA+AGG - chr5.4:15088717-15088736 MS.gene67537:CDS 50.0%
CTCCGCTCTTAGAAGGAGAA+AGG - chr5.4:15088724-15088743 MS.gene67537:CDS 50.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 15088389 15089246 15088389 ID=MS.gene67537
chr5.4 mRNA 15088389 15089246 15088389 ID=MS.gene67537.t1;Parent=MS.gene67537
chr5.4 exon 15088389 15089246 15088389 ID=MS.gene67537.t1.exon1;Parent=MS.gene67537.t1
chr5.4 CDS 15088389 15089246 15088389 ID=cds.MS.gene67537.t1;Parent=MS.gene67537.t1
Gene Sequence

>MS.gene67537

ATGGCAAGCAAATACCATGTTCGCTCAAATAGTTTTCCTTCTCAATCTCATCCAAGCACCACTAGAATTGAACAAGAGTTAACAAAAATGAAGACATGGGAAGCCACATCAACATCCACATCTGATTCAATTACCAATGGCCTTTTCTTTCTTGAAGATTTGTATATTTCATTGGAGGATCTTCTACATATGTCATCAACACAAAAGGCCGTTTCTCACCATCAAGGTGAGAAAATTGTGGAAGAGTTGTTGGATGGTTCGGTGAAACTTTTAGATATATGTGGCATCACAAGGGACACCATGTTACAGATTAAAGAAAATGTTCAATCACTTCACTCCGCTCTTAGAAGGAGAAAGGGAGATTCAAGCAACGAAACAAGTGTAGTTGAATATAAATTATTCACAAAGAAGATGAGGAAGAATGTCGCAAAGTTGATCACATCTTTAAAACATATGGAAAGTAAATTTGGAGCTTCCTCACTATTAGATCAAGATCAAGACCTTGTTGCTGTGATTACAGTTCTTAGAGAGGTCGTTGCAATGAACTTGTCTATCTTTCAATCTGTTTTTTCTTTCTTGGTTGGATCTTCATCAAAGTCAAAGGCAACCAAATGGTTGAAAGTGACAAAGTTGATGCAAAAGAGGGTATCATGTGAAGAGAACATGGAGAATTTCAATGAATTGCAGTGTGTGGAAGCATCTTTGAGAACCCTTATAAGTGAAGGTTCTAATGTTGCACACGAAAGATTTGAGGCTTTGGAGAATGCAATTGAAAGTATAGAAAATGGTTTAGAGAATATATTTAGGCGTTTGGTTAAAACTAGAGTCTGTCTTTTGAACATCATAACTCTATCTTAG
Protein sequence

>MS.gene67537.t1

MASKYHVRSNSFPSQSHPSTTRIEQELTKMKTWEATSTSTSDSITNGLFFLEDLYISLEDLLHMSSTQKAVSHHQGEKIVEELLDGSVKLLDICGITRDTMLQIKENVQSLHSALRRRKGDSSNETSVVEYKLFTKKMRKNVAKLITSLKHMESKFGASSLLDQDQDLVAVITVLREVVAMNLSIFQSVFSFLVGSSSKSKATKWLKVTKLMQKRVSCEENMENFNELQCVEASLRTLISEGSNVAHERFEALENAIESIENGLENIFRRLVKTRVCLLNIITLS