AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene069794


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069794.t1 MTR_3g077720 85.455 165 23 1 1 165 1 164 3.42e-101 288
MS.gene069794.t1 MTR_3g077730 80.303 132 23 2 32 161 5 135 2.71e-69 207
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069794.t1 AT4G22220 68.831 154 45 3 5 157 7 158 8.21e-69 206
MS.gene069794.t1 AT4G04080 62.893 159 56 3 1 158 1 157 3.91e-67 202
MS.gene069794.t1 AT3G01020 60.606 165 61 2 1 165 3 163 4.43e-63 191

Find 48 sgRNAs with CRISPR-Local

Find 94 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAATTAAGGTTGATGATAA+TGG 0.228001 6.2:-72077341 MS.gene069794:CDS
TGTCATGAAGTTTCAAATTA+AGG 0.237273 6.2:-72077354 MS.gene069794:CDS
AGTCGCCAATTCCAGCAATT+AGG 0.263293 6.2:-72077505 MS.gene069794:CDS
CCGAAGATCTTTCTTATTGA+AGG 0.314287 6.2:+72077418 None:intergenic
GATTCTTGCTTTAAGACCTT+TGG 0.331092 6.2:-72077308 MS.gene069794:CDS
GTCGCCAATTCCAGCAATTA+GGG 0.344413 6.2:-72077504 MS.gene069794:CDS
ATGCTGCAGTGAAGCTTAAC+TGG 0.354352 6.2:+72076313 None:intergenic
CGCAAAGAAACTCGTGCAAA+CGG 0.368310 6.2:-72077537 MS.gene069794:CDS
AGAACCCTAATTGCTGGAAT+TGG 0.383969 6.2:+72077500 None:intergenic
CTTCAATAAGAAAGATCTTC+GGG 0.392132 6.2:-72077417 MS.gene069794:CDS
CGTGGAAGAACCCTAATTGC+TGG 0.397022 6.2:+72077494 None:intergenic
GCAAAGAAACTCGTGCAAAC+GGG 0.401810 6.2:-72077536 MS.gene069794:CDS
ATTGAAGGATCCAACGTTCC+GGG 0.412834 6.2:+72077433 None:intergenic
TATTGAAGGATCCAACGTTC+CGG 0.415466 6.2:+72077432 None:intergenic
GCAGCTACCGAATGGGTAAA+GGG 0.446012 6.2:-72077111 MS.gene069794:intron
TGCCTCGGCTACTGCGGCCA+CGG 0.446467 6.2:-72076239 MS.gene069794:CDS
TTGCTTTCCCTTTACCCATT+CGG 0.451240 6.2:+72077104 None:intergenic
CCTTCAATAAGAAAGATCTT+CGG 0.452805 6.2:-72077418 MS.gene069794:CDS
TGCAGCTACCGAATGGGTAA+AGG 0.460825 6.2:-72077112 MS.gene069794:intron
TGCTTTAAGACCTTTGGATG+TGG 0.461939 6.2:-72077302 MS.gene069794:CDS
GAGGTGGGATCTGATCTTGT+TGG 0.488889 6.2:-72077395 MS.gene069794:CDS
TAAGAAAGATCTTCGGGAGG+TGG 0.491830 6.2:-72077411 MS.gene069794:CDS
GCCTCGGCTACTGCGGCCAC+GGG 0.517239 6.2:-72076238 MS.gene069794:CDS
TGCAGTGAAGCTTAACTGGC+GGG 0.542392 6.2:+72076317 None:intergenic
TCCCGTGGCCGCAGTAGCCG+AGG 0.550070 6.2:+72076237 None:intergenic
TACAACAATCCCCGGAACGT+TGG 0.563672 6.2:-72077443 MS.gene069794:CDS
AAGAAAGATCTTCGGGAGGT+GGG 0.571174 6.2:-72077410 MS.gene069794:CDS
GCTATTGCTTCATCGTCCGT+TGG 0.572466 6.2:-72077275 MS.gene069794:intron
TTATGAAGCTAAGCGTGCCT+CGG 0.575006 6.2:-72076254 MS.gene069794:CDS
CTTCATGACATCACCACAAG+CGG 0.586806 6.2:+72077367 None:intergenic
TTGAAGGATCCAACGTTCCG+GGG 0.597622 6.2:+72077434 None:intergenic
TAAGCGTGCCTCGGCTACTG+CGG 0.598393 6.2:-72076245 MS.gene069794:CDS
CAAAGAAACTCGTGCAAACG+GGG 0.599049 6.2:-72077535 MS.gene069794:CDS
TTCATGACATCACCACAAGC+GGG 0.599308 6.2:+72077368 None:intergenic
TGGATCACTACAACAATCCC+CGG 0.601326 6.2:-72077451 MS.gene069794:CDS
GGTAAAGGGAAAGCAAATTG+AGG 0.606606 6.2:-72077097 MS.gene069794:CDS
TCACTGCAGCATGCTTGCTG+AGG 0.608636 6.2:-72076302 MS.gene069794:CDS
AGTGGCAGATTTGTCTCCCG+TGG 0.628353 6.2:+72076222 None:intergenic
CTGCAGTGAAGCTTAACTGG+CGG 0.631259 6.2:+72076316 None:intergenic
ACACTCTTGTTGTAGAATCG+TGG 0.637064 6.2:+72077476 None:intergenic
CTTGTTGGTGCACCCGCTTG+TGG 0.639096 6.2:-72077380 MS.gene069794:CDS
AATAGCGGAACCACATCCAA+AGG 0.639771 6.2:+72077292 None:intergenic
CAATGGCAGAAATCATGCAG+TGG 0.655559 6.2:+72076204 None:intergenic
AACGGACGATGAAGCAATAG+CGG 0.675366 6.2:+72077277 None:intergenic
ATTCTACAACAAGAGTGTGG+TGG 0.687522 6.2:-72077471 MS.gene069794:CDS
TGAGGATGCTATAAAAGCAG+CGG 0.695297 6.2:-72076284 MS.gene069794:CDS
CAATAAGAAAGATCTTCGGG+AGG 0.711849 6.2:-72077414 MS.gene069794:CDS
ACGATTCTACAACAAGAGTG+TGG 0.712155 6.2:-72077474 MS.gene069794:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAAAATAAAACTTGATAT+AGG + chr6.2:72076971-72076990 None:intergenic 10.0%
!! ATAATCAAATTCAATAAAAA+AGG + chr6.2:72076593-72076612 None:intergenic 10.0%
!! TAATCAAATTCAATAAAAAA+GGG + chr6.2:72076592-72076611 None:intergenic 10.0%
!!! AAATTAAGGATTTTTTTTTT+AGG - chr6.2:72076546-72076565 MS.gene069794:intron 10.0%
!!! AATTAAGGATTTTTTTTTTA+GGG - chr6.2:72076547-72076566 MS.gene069794:intron 10.0%
!!! ATATAAAAATTTGTTGAAGA+TGG - chr6.2:72077057-72077076 MS.gene069794:intron 15.0%
!!! TATAAAAATTTGTTGAAGAT+GGG - chr6.2:72077058-72077077 MS.gene069794:intron 15.0%
!!! TTTTATTTTTATCTTCAGTT+CGG - chr6.2:72076984-72077003 MS.gene069794:intron 15.0%
!! AACAAGAAAAAGAAATCAAA+AGG + chr6.2:72077250-72077269 None:intergenic 20.0%
!! ATGTAGAAAGCAAATATATT+TGG - chr6.2:72077102-72077121 MS.gene069794:CDS 20.0%
!!! CTACTAAATAGTTTTATCTT+TGG - chr6.2:72077327-72077346 MS.gene069794:CDS 20.0%
!!! GTTACATTTTAATCAAACTT+TGG - chr6.2:72077011-72077030 MS.gene069794:intron 20.0%
!!! TGATTTCTTTTTCTTGTTTT+TGG - chr6.2:72077252-72077271 MS.gene069794:intron 20.0%
!!! TTGGTTTTAGTTTTATGTTT+CGG - chr6.2:72077125-72077144 MS.gene069794:intron 20.0%
! AGAAAGCAAATATATTTGGT+TGG - chr6.2:72077106-72077125 MS.gene069794:CDS 25.0%
! TGTCATGAAGTTTCAAATTA+AGG - chr6.2:72076410-72076429 MS.gene069794:intron 25.0%
!! ATATTTTGCCATAATAAGCA+TGG - chr6.2:72076926-72076945 MS.gene069794:intron 25.0%
!! TATTTTTCGCACTTATGATT+AGG - chr6.2:72076843-72076862 MS.gene069794:intron 25.0%
!!! CAAATTAAGGTTGATGATAA+TGG - chr6.2:72076423-72076442 MS.gene069794:intron 25.0%
!!! TAGGTTGTTTTTTCATGTAT+TGG - chr6.2:72076512-72076531 MS.gene069794:intron 25.0%
!!! TGGTTTGTTATAGGAAATTA+AGG - chr6.2:72076532-72076551 MS.gene069794:intron 25.0%
!!! TGGTTTTAGTTTTATGTTTC+GGG - chr6.2:72077126-72077145 MS.gene069794:intron 25.0%
!!! TTCATGTATTGGTTTGTTAT+AGG - chr6.2:72076523-72076542 MS.gene069794:intron 25.0%
!!! TTCTTTTTCTTGTTTTTGGA+AGG - chr6.2:72077256-72077275 MS.gene069794:intron 25.0%
!!! TTTTAATCAAACTTTGGCTT+TGG - chr6.2:72077017-72077036 MS.gene069794:intron 25.0%
AATAAGCTGTTTATCCAAAC+AGG + chr6.2:72077166-72077185 None:intergenic 30.0%
AGTTATGTGCTTGAGAATAT+TGG - chr6.2:72076874-72076893 MS.gene069794:intron 30.0%
ATAAGCTGTTTATCCAAACA+GGG + chr6.2:72077165-72077184 None:intergenic 30.0%
ATGAAAAAACAACCTACCAA+CGG + chr6.2:72076508-72076527 None:intergenic 30.0%
ATTAAGAAGACGTAAGTAAC+TGG - chr6.2:72076701-72076720 MS.gene069794:intron 30.0%
CCTTCAATAAGAAAGATCTT+CGG - chr6.2:72076346-72076365 MS.gene069794:intron 30.0%
CTTCAATAAGAAAGATCTTC+GGG - chr6.2:72076347-72076366 MS.gene069794:intron 30.0%
!! ACAGCTTATTTTTCTGCTTA+TGG - chr6.2:72077176-72077195 MS.gene069794:intron 30.0%
!! ATTTGTTGAAGATGGGTTTT+TGG - chr6.2:72077065-72077084 MS.gene069794:intron 30.0%
!!! TTTTTCTTGTTTTTGGAAGG+AGG - chr6.2:72077259-72077278 MS.gene069794:intron 30.0%
AACTGCTTCCATGCTTATTA+TGG + chr6.2:72076937-72076956 None:intergenic 35.0%
CCGAAGATCTTTCTTATTGA+AGG + chr6.2:72076349-72076368 None:intergenic 35.0%
GAAGTTTGTGTATTACTACG+TGG - chr6.2:72076769-72076788 MS.gene069794:intron 35.0%
TAAGATCAAATCCTGCAGAT+CGG + chr6.2:72077307-72077326 None:intergenic 35.0%
!! GATTCTTGCTTTAAGACCTT+TGG - chr6.2:72076456-72076475 MS.gene069794:intron 35.0%
!! TTTGGTAATGCTTCCATGAT+TGG - chr6.2:72077345-72077364 MS.gene069794:CDS 35.0%
ACGATTCTACAACAAGAGTG+TGG - chr6.2:72076290-72076309 MS.gene069794:CDS 40.0%
AGAACCCTAATTGCTGGAAT+TGG + chr6.2:72076267-72076286 None:intergenic 40.0%
CAATAAGAAAGATCTTCGGG+AGG - chr6.2:72076350-72076369 MS.gene069794:intron 40.0%
CAGACCAAAACTACCAATCA+TGG + chr6.2:72077361-72077380 None:intergenic 40.0%
GGTAAAGGGAAAGCAAATTG+AGG - chr6.2:72076667-72076686 MS.gene069794:intron 40.0%
TATTGAAGGATCCAACGTTC+CGG + chr6.2:72076335-72076354 None:intergenic 40.0%
TGAGGATGCTATAAAAGCAG+CGG - chr6.2:72077480-72077499 MS.gene069794:CDS 40.0%
TTGCTTTCCCTTTACCCATT+CGG + chr6.2:72076663-72076682 None:intergenic 40.0%
! ACACTCTTGTTGTAGAATCG+TGG + chr6.2:72076291-72076310 None:intergenic 40.0%
! ATTCTACAACAAGAGTGTGG+TGG - chr6.2:72076293-72076312 MS.gene069794:CDS 40.0%
!! GCTTCCATGATTGGTAGTTT+TGG - chr6.2:72077354-72077373 MS.gene069794:CDS 40.0%
!! TGCTTTAAGACCTTTGGATG+TGG - chr6.2:72076462-72076481 MS.gene069794:intron 40.0%
AACGGACGATGAAGCAATAG+CGG + chr6.2:72076490-72076509 None:intergenic 45.0%
AAGAAAGATCTTCGGGAGGT+GGG - chr6.2:72076354-72076373 MS.gene069794:intron 45.0%
AGTCGCCAATTCCAGCAATT+AGG - chr6.2:72076259-72076278 MS.gene069794:CDS 45.0%
ATGCTGCAGTGAAGCTTAAC+TGG + chr6.2:72077454-72077473 None:intergenic 45.0%
ATTGAAGGATCCAACGTTCC+GGG + chr6.2:72076334-72076353 None:intergenic 45.0%
CAAAGAAACTCGTGCAAACG+GGG - chr6.2:72076229-72076248 MS.gene069794:CDS 45.0%
CGCAAAGAAACTCGTGCAAA+CGG - chr6.2:72076227-72076246 MS.gene069794:CDS 45.0%
CTTCATGACATCACCACAAG+CGG + chr6.2:72076400-72076419 None:intergenic 45.0%
GCAAAGAAACTCGTGCAAAC+GGG - chr6.2:72076228-72076247 MS.gene069794:CDS 45.0%
GCGCGAATCAGAAACCAAAA+GGG + chr6.2:72077285-72077304 None:intergenic 45.0%
GTCGCCAATTCCAGCAATTA+GGG - chr6.2:72076260-72076279 MS.gene069794:CDS 45.0%
TAAGAAAGATCTTCGGGAGG+TGG - chr6.2:72076353-72076372 MS.gene069794:intron 45.0%
TGGATCACTACAACAATCCC+CGG - chr6.2:72076313-72076332 MS.gene069794:CDS 45.0%
TTATGAAGCTAAGCGTGCCT+CGG - chr6.2:72077510-72077529 MS.gene069794:CDS 45.0%
TTCATGACATCACCACAAGC+GGG + chr6.2:72076399-72076418 None:intergenic 45.0%
TTTGAAGATGCGACCCTGTT+TGG - chr6.2:72077149-72077168 MS.gene069794:intron 45.0%
! AATAGCGGAACCACATCCAA+AGG + chr6.2:72076475-72076494 None:intergenic 45.0%
! ATCGTTTTGCAGCTACCGAA+TGG - chr6.2:72076645-72076664 MS.gene069794:intron 45.0%
! TCGTTTTGCAGCTACCGAAT+GGG - chr6.2:72076646-72076665 MS.gene069794:intron 45.0%
!! AACTTTGGCTTTGGTGCTTG+AGG - chr6.2:72077026-72077045 MS.gene069794:intron 45.0%
!! TTTTTGGAAGGAGGCCCTTT+TGG - chr6.2:72077268-72077287 MS.gene069794:intron 45.0%
CGTGGAAGAACCCTAATTGC+TGG + chr6.2:72076273-72076292 None:intergenic 50.0%
CTGCAGTGAAGCTTAACTGG+CGG + chr6.2:72077451-72077470 None:intergenic 50.0%
GAGGTGGGATCTGATCTTGT+TGG - chr6.2:72076369-72076388 MS.gene069794:intron 50.0%
GCAGCTACCGAATGGGTAAA+GGG - chr6.2:72076653-72076672 MS.gene069794:intron 50.0%
GCTATTGCTTCATCGTCCGT+TGG - chr6.2:72076489-72076508 MS.gene069794:intron 50.0%
GGCGCGAATCAGAAACCAAA+AGG + chr6.2:72077286-72077305 None:intergenic 50.0%
TACAACAATCCCCGGAACGT+TGG - chr6.2:72076321-72076340 MS.gene069794:CDS 50.0%
TGCAGCTACCGAATGGGTAA+AGG - chr6.2:72076652-72076671 MS.gene069794:intron 50.0%
TGCAGTGAAGCTTAACTGGC+GGG + chr6.2:72077450-72077469 None:intergenic 50.0%
TTGAAGGATCCAACGTTCCG+GGG + chr6.2:72076333-72076352 None:intergenic 50.0%
TTGCTTCATCGTCCGTTGGT+AGG - chr6.2:72076493-72076512 MS.gene069794:intron 50.0%
!! GCTTTGGTGCTTGAGGTTGA+TGG - chr6.2:72077033-72077052 MS.gene069794:intron 50.0%
AGTGGCAGATTTGTCTCCCG+TGG + chr6.2:72077545-72077564 None:intergenic 55.0%
! TCACTGCAGCATGCTTGCTG+AGG - chr6.2:72077462-72077481 MS.gene069794:CDS 55.0%
CTTGTTGGTGCACCCGCTTG+TGG - chr6.2:72076384-72076403 MS.gene069794:intron 60.0%
TAAGCGTGCCTCGGCTACTG+CGG - chr6.2:72077519-72077538 MS.gene069794:CDS 60.0%
! TCTGATTCGCGCCGATCTGC+AGG - chr6.2:72077293-72077312 MS.gene069794:CDS 60.0%
TGCCTCGGCTACTGCGGCCA+CGG - chr6.2:72077525-72077544 MS.gene069794:CDS 70.0%
GCCTCGGCTACTGCGGCCAC+GGG - chr6.2:72077526-72077545 MS.gene069794:CDS 75.0%
TCCCGTGGCCGCAGTAGCCG+AGG + chr6.2:72077530-72077549 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 72076216 72077570 72076216 ID=MS.gene069794
chr6.2 mRNA 72076216 72077570 72076216 ID=MS.gene069794.t1;Parent=MS.gene069794
chr6.2 exon 72077276 72077570 72077276 ID=MS.gene069794.t1.exon1;Parent=MS.gene069794.t1
chr6.2 CDS 72077276 72077570 72077276 ID=cds.MS.gene069794.t1;Parent=MS.gene069794.t1
chr6.2 exon 72077075 72077129 72077075 ID=MS.gene069794.t1.exon2;Parent=MS.gene069794.t1
chr6.2 CDS 72077075 72077129 72077075 ID=cds.MS.gene069794.t1;Parent=MS.gene069794.t1
chr6.2 exon 72076216 72076363 72076216 ID=MS.gene069794.t1.exon3;Parent=MS.gene069794.t1
chr6.2 CDS 72076216 72076363 72076216 ID=cds.MS.gene069794.t1;Parent=MS.gene069794.t1
Gene Sequence

>MS.gene069794

ATGCTGAGAATCGCAAAGAAACTCGTGCAAACGGGGTCGTTTGAGTCGCCAATTCCAGCAATTAGGGTTCTTCCACGATTCTACAACAAGAGTGTGGTGGATCACTACAACAATCCCCGGAACGTTGGATCCTTCAATAAGAAAGATCTTCGGGAGGTGGGATCTGATCTTGTTGGTGCACCCGCTTGTGGTGATGTCATGAAGTTTCAAATTAAGGTTGATGATAATGGAACAATCGTTGATTCTTGCTTTAAGACCTTTGGATGTGGTTCCGCTATTGCTTCATCGTCCGTTGGTAGGTTGTTTTTTCATGTATTGGTTTGTTATAGGAAATTAAGGATTTTTTTTTTAGGGTTGTGTTTGAATTTCAATTCCCTTTTTTATTGAATTTGATTATTACGACTATGTTATTGTTAATTGTGCTTGTTTATCGTTTTGCAGCTACCGAATGGGTAAAGGGAAAGCAAATTGAGGAAGTTTTAAGCATTAAGAAGACGTAAGTAACTGGTCTAAGAATTTTTTACTTTGTTGCAAATTGTGTTTTTGTCTAGCTGAAGTTTGTGTATTACTACGTGGTTTATTTCTTAGTTGTTGTGTATTTTTGTGATTTATTTCTTAATTAAATGATATTTTTCGCACTTATGATTAGGTGAAGAATAGTTATGTGCTTGAGAATATTGGATGATATTCATAAAAGTAACGAAATAATAATATTTTGCCATAATAAGCATGGAAGCAGTTATGAGCTATATCCTATATCAAGTTTTATTTTATTTTTATCTTCAGTTCGGTAATGTTACATTTTAATCAAACTTTGGCTTTGGTGCTTGAGGTTGATGGTATATAAAAATTTGTTGAAGATGGGTTTTTGGCTATTCAAGTTTAGATGTAGAAAGCAAATATATTTGGTTGGTTTTAGTTTTATGTTTCGGGTTTGAAGATGCGACCCTGTTTGGATAAACAGCTTATTTTTCTGCTTATGGTATAAACGATTATCATATAAGCACTTAAGAGATATAATATCATATAAGCCTTTTGATTTCTTTTTCTTGTTTTTGGAAGGAGGCCCTTTTGGTTTCTGATTCGCGCCGATCTGCAGGATTTGATCTTACTACTAAATAGTTTTATCTTTGGTAATGCTTCCATGATTGGTAGTTTTGGTCTGTTTGTTGTTAGTTTTTGAAGTGACAAAATTAATCTTGTGCAGTGAGATTGCAAAGCATCTTAAACTCCCGCCAGTTAAGCTTCACTGCAGCATGCTTGCTGAGGATGCTATAAAAGCAGCGGTTAAAGATTATGAAGCTAAGCGTGCCTCGGCTACTGCGGCCACGGGAGACAAATCTGCCACTGCATGA

Protein sequence

>MS.gene069794.t1

MLRIAKKLVQTGSFESPIPAIRVLPRFYNKSVVDHYNNPRNVGSFNKKDLREVGSDLVGAPACGDVMKFQIKVDDNGTIVDSCFKTFGCGSAIASSSVATEWVKGKQIEEVLSIKKTEIAKHLKLPPVKLHCSMLAEDAIKAAVKDYEAKRASATAATGDKSATA