AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene08771

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08771.t1 MTR_8g085740 97.744 133 3 0 1 133 1 133 3.08e-95 270
MS.gene08771.t1 MTR_7g053180 93.233 133 9 0 1 133 1 133 8.78e-82 236
MS.gene08771.t1 MTR_7g007920 91.729 133 11 0 1 133 1 133 6.20e-80 231
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08771.t1 AT4G18100 85.714 133 19 0 1 133 1 133 7.13e-83 239
MS.gene08771.t1 AT5G46430 83.459 133 22 0 1 133 1 133 9.82e-82 236
MS.gene08771.t1 AT5G46430 83.459 133 22 0 1 133 1 133 9.82e-82 236

Find 27 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACGTGTGAGGAGAAAGTTTA+AGG 0.191818 4.2:-12717405 MS.gene08771:CDS
ATCCTCTTGGCTTCTTAATC+TGG 0.199393 4.2:+12717154 None:intergenic
TCTGATCCATAACCAATATT+TGG 0.206853 4.2:+12717368 None:intergenic
TTGATGCCAAATATTGGTTA+TGG 0.313793 4.2:-12717374 MS.gene08771:CDS
TGTACTTTGATGCCAAATAT+TGG 0.317464 4.2:-12717380 MS.gene08771:CDS
TGTTAGCAATGTTAATGATT+TGG 0.340509 4.2:-12717300 MS.gene08771:CDS
TTTATGTTCTATAGGAAAAC+TGG 0.345695 4.2:-12717451 MS.gene08771:intron
ACAAATTTCTTAAACCCATT+TGG 0.379962 4.2:+12717323 None:intergenic
AACTTCTTATGATGCACAAT+AGG 0.396049 4.2:-12717277 MS.gene08771:CDS
ACTAGACATTATCTACCAAA+TGG 0.434696 4.2:-12717338 MS.gene08771:CDS
CGTGTGAGGAGAAAGTTTAA+GGG 0.437549 4.2:-12717404 MS.gene08771:CDS
GGAAAACTGGCGCAGACCTA+AGG 0.469166 4.2:-12717438 MS.gene08771:CDS
CTAGACATTATCTACCAAAT+GGG 0.498671 4.2:-12717337 MS.gene08771:CDS
CACAGATCTTACGATCACTC+TGG 0.512108 4.2:+12718301 None:intergenic
ACACGTGAATCAATACCCTT+AGG 0.518532 4.2:+12717422 None:intergenic
ACGATCTTCTTCGTTAGAAG+AGG 0.531065 4.2:+12718354 None:intergenic
CGAAGAAGATCGTGAAGAAG+AGG 0.534366 4.2:-12718344 MS.gene08771:CDS
TGTATCCACTGGAAAGAGAA+AGG 0.536690 4.2:-12717228 MS.gene08771:CDS
ATTGCTCACAATGTATCCAC+TGG 0.538581 4.2:-12717239 MS.gene08771:CDS
TATGTCCTTTCTCTTTCCAG+TGG 0.549342 4.2:+12717223 None:intergenic
ACAGATCTTACGATCACTCT+GGG 0.566997 4.2:+12718302 None:intergenic
GAAAACTGGCGCAGACCTAA+GGG 0.589940 4.2:-12717437 MS.gene08771:CDS
GAAGAAGATCGTGAAGAAGA+GGG 0.591416 4.2:-12718343 MS.gene08771:CDS
TGATCGTAAGATCTGTGTGA+AGG 0.643025 4.2:-12718295 MS.gene08771:intron
AGGGTATTGATTCACGTGTG+AGG 0.652387 4.2:-12717418 MS.gene08771:CDS
AGCCAGATTAAGAAGCCAAG+AGG 0.653486 4.2:-12717156 MS.gene08771:CDS
CAGATCTTACGATCACTCTG+GGG 0.755212 4.2:+12718303 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTTAAGAAACAAAAATA+AGG + chr4.2:12717353-12717372 None:intergenic 10.0%
!!! ATAGTTATTATTTTTTGATT+TGG - chr4.2:12717532-12717551 MS.gene08771:intron 10.0%
!! AAAAATAAGGTAAATAAATC+AGG + chr4.2:12717340-12717359 None:intergenic 15.0%
!! TTGTATTTATTTAACTGTAT+AGG - chr4.2:12717500-12717519 MS.gene08771:intron 15.0%
!! AAAAAGTAGAGATTTGTATT+AGG + chr4.2:12717478-12717497 None:intergenic 20.0%
!! AAAAGTAGAGATTTGTATTA+GGG + chr4.2:12717477-12717496 None:intergenic 20.0%
!! AACAACTTGAAAATATAAAC+AGG + chr4.2:12717842-12717861 None:intergenic 20.0%
!! AATGATGATATATATCCATA+CGG - chr4.2:12717581-12717600 MS.gene08771:intron 20.0%
!! ACAACTTGAAAATATAAACA+GGG + chr4.2:12717841-12717860 None:intergenic 20.0%
!! ACAATAACTAACAAAAAACA+TGG + chr4.2:12717874-12717893 None:intergenic 20.0%
!! ATGATATGTTTATGTTCTAT+AGG - chr4.2:12718052-12718071 MS.gene08771:intron 20.0%
!! GTGATATATTTGATTAATCA+CGG + chr4.2:12717949-12717968 None:intergenic 20.0%
!! TGATATATTTGATTAATCAC+GGG + chr4.2:12717948-12717967 None:intergenic 20.0%
!! TTATTCGTCTTTATTGAAAA+TGG - chr4.2:12718017-12718036 MS.gene08771:intron 20.0%
!!! TTTGTTTTTGTTTACATGAT+GGG - chr4.2:12717378-12717397 MS.gene08771:CDS 20.0%
!!! TTTTGTTTTTGTTTACATGA+TGG - chr4.2:12717377-12717396 MS.gene08771:CDS 20.0%
! AATTTAGTGTAAATTGCCTA+TGG - chr4.2:12717688-12717707 MS.gene08771:intron 25.0%
! ACAAATTTCTTAAACCCATT+TGG + chr4.2:12718191-12718210 None:intergenic 25.0%
! GTATAATATGCTCATCAAAT+CGG - chr4.2:12717238-12717257 MS.gene08771:CDS 25.0%
! TAGAACATAAACATATCATG+TGG + chr4.2:12718051-12718070 None:intergenic 25.0%
! TGTTAGCAATGTTAATGATT+TGG - chr4.2:12718211-12718230 MS.gene08771:intron 25.0%
! TTTATGTTCTATAGGAAAAC+TGG - chr4.2:12718060-12718079 MS.gene08771:intron 25.0%
!!! TTGTTTTTGTTTACATGATG+GGG - chr4.2:12717379-12717398 MS.gene08771:CDS 25.0%
AACTTCTTATGATGCACAAT+AGG - chr4.2:12718234-12718253 MS.gene08771:intron 30.0%
ACGGGATAATCATAATAGTA+AGG + chr4.2:12717930-12717949 None:intergenic 30.0%
ACTAGACATTATCTACCAAA+TGG - chr4.2:12718173-12718192 MS.gene08771:intron 30.0%
CTAGACATTATCTACCAAAT+GGG - chr4.2:12718174-12718193 MS.gene08771:intron 30.0%
TCTGATCCATAACCAATATT+TGG + chr4.2:12718146-12718165 None:intergenic 30.0%
TGTACTTTGATGCCAAATAT+TGG - chr4.2:12718131-12718150 MS.gene08771:intron 30.0%
! ATAATTTGCAAGAGATCAGA+TGG + chr4.2:12717640-12717659 None:intergenic 30.0%
! TTGATGCCAAATATTGGTTA+TGG - chr4.2:12718137-12718156 MS.gene08771:intron 30.0%
AACAGGGAATTAGTAACAGT+AGG + chr4.2:12717825-12717844 None:intergenic 35.0%
TCATCTATAACAGAACCGTA+TGG + chr4.2:12717599-12717618 None:intergenic 35.0%
! GGCATAGAACAAACTTTTAC+AGG - chr4.2:12717767-12717786 MS.gene08771:intron 35.0%
!! AGCTGGACATTTCGTTTTTA+CGG - chr4.2:12717745-12717764 MS.gene08771:intron 35.0%
ACACGTGAATCAATACCCTT+AGG + chr4.2:12718092-12718111 None:intergenic 40.0%
ACAGATCTTACGATCACTCT+GGG + chr4.2:12717212-12717231 None:intergenic 40.0%
ACGATCTTCTTCGTTAGAAG+AGG + chr4.2:12717160-12717179 None:intergenic 40.0%
ACGTGTGAGGAGAAAGTTTA+AGG - chr4.2:12718106-12718125 MS.gene08771:intron 40.0%
ATCCAGTCTTACTACATACG+TGG - chr4.2:12717431-12717450 MS.gene08771:CDS 40.0%
ATCCTCTTGGCTTCTTAATC+TGG + chr4.2:12718360-12718379 None:intergenic 40.0%
ATTGCTCACAATGTATCCAC+TGG - chr4.2:12718272-12718291 MS.gene08771:intron 40.0%
CGTGTGAGGAGAAAGTTTAA+GGG - chr4.2:12718107-12718126 MS.gene08771:intron 40.0%
CGTTGGTGCAAATTAAGACT+GGG + chr4.2:12717286-12717305 None:intergenic 40.0%
CTAGACATAAGCCTGAATTC+TGG + chr4.2:12717724-12717743 None:intergenic 40.0%
GAAGAAGATCGTGAAGAAGA+GGG - chr4.2:12717168-12717187 MS.gene08771:CDS 40.0%
GTATCTGATGTCCAGAATTC+AGG - chr4.2:12717710-12717729 MS.gene08771:intron 40.0%
GTTGGTGCAAATTAAGACTG+GGG + chr4.2:12717285-12717304 None:intergenic 40.0%
TATGTCCTTTCTCTTTCCAG+TGG + chr4.2:12718291-12718310 None:intergenic 40.0%
TGATCGTAAGATCTGTGTGA+AGG - chr4.2:12717216-12717235 MS.gene08771:CDS 40.0%
TGTATCCACTGGAAAGAGAA+AGG - chr4.2:12718283-12718302 MS.gene08771:intron 40.0%
TTCTGGACATCAGATACCAT+AGG + chr4.2:12717707-12717726 None:intergenic 40.0%
TTTGCACCAACGGTGTAATA+TGG - chr4.2:12717294-12717313 MS.gene08771:CDS 40.0%
! GTTTACATGATGGGGATATG+AGG - chr4.2:12717387-12717406 MS.gene08771:CDS 40.0%
!! CCAGTCTTAATTTGCACCAA+CGG - chr4.2:12717284-12717303 MS.gene08771:CDS 40.0%
!! GCTGGACATTTCGTTTTTAC+GGG - chr4.2:12717746-12717765 MS.gene08771:intron 40.0%
AGCCAGATTAAGAAGCCAAG+AGG - chr4.2:12718355-12718374 MS.gene08771:CDS 45.0%
CACAGATCTTACGATCACTC+TGG + chr4.2:12717213-12717232 None:intergenic 45.0%
CACCACGTATGTAGTAAGAC+TGG + chr4.2:12717436-12717455 None:intergenic 45.0%
CAGATCTTACGATCACTCTG+GGG + chr4.2:12717211-12717230 None:intergenic 45.0%
CAGTCACCATATTACACCGT+TGG + chr4.2:12717303-12717322 None:intergenic 45.0%
CCGTTGGTGCAAATTAAGAC+TGG + chr4.2:12717287-12717306 None:intergenic 45.0%
CGAAGAAGATCGTGAAGAAG+AGG - chr4.2:12717167-12717186 MS.gene08771:CDS 45.0%
CTGCAATCTCAGTCGAAAGA+TGG + chr4.2:12717971-12717990 None:intergenic 45.0%
TCAGGCTTATGTCTAGTAGC+TGG - chr4.2:12717728-12717747 MS.gene08771:intron 45.0%
TTTACAGGTCTTGCGACACA+GGG - chr4.2:12717782-12717801 MS.gene08771:intron 45.0%
! TTTTACAGGTCTTGCGACAC+AGG - chr4.2:12717781-12717800 MS.gene08771:intron 45.0%
!! AGGGTATTGATTCACGTGTG+AGG - chr4.2:12718093-12718112 MS.gene08771:intron 45.0%
GAAAACTGGCGCAGACCTAA+GGG - chr4.2:12718074-12718093 MS.gene08771:intron 50.0%
TTACAGGTCTTGCGACACAG+GGG - chr4.2:12717783-12717802 MS.gene08771:intron 50.0%
GGAAAACTGGCGCAGACCTA+AGG - chr4.2:12718073-12718092 MS.gene08771:intron 55.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 12717148 12718385 12717148 ID=MS.gene08771
chr4.2 mRNA 12717148 12718385 12717148 ID=MS.gene08771.t1;Parent=MS.gene08771
chr4.2 exon 12718296 12718385 12718296 ID=MS.gene08771.t1.exon1;Parent=MS.gene08771.t1
chr4.2 CDS 12718296 12718385 12718296 ID=cds.MS.gene08771.t1;Parent=MS.gene08771.t1
chr4.2 exon 12717148 12717459 12717148 ID=MS.gene08771.t1.exon2;Parent=MS.gene08771.t1
chr4.2 CDS 12717148 12717459 12717148 ID=cds.MS.gene08771.t1;Parent=MS.gene08771.t1
Gene Sequence

>MS.gene08771

ATGGCTGTGCCTCTTCTAACGAAGAAGATCGTGAAGAAGAGGGTCAAACATTTCAAGAGACCCCAGAGTGATCGTAAGATCTGTGTGAAGGTATAATATGCTCATCAAATCGGATGTGATGATAGTAATTGTCGCCCCAGTCTTAATTTGCACCAACGGTGTAATATGGTGACTGACACTTTATCTGATCCTGATTTATTTACCTTATTTTTGTTTCTTAAATTTTTGTTTTTGTTTTTGTTTACATGATGGGGATATGAGGATAAAAAAATTCAAATGTGACATCCAGTCTTACTACATACGTGGTGATTGATCGACTATCTGATCCCTAATACAAATCTCTACTTTTTATTTGTATTTATTTAACTGTATAGGTTTTTAATTATAGTTATTATTTTTTGATTTGGAGCGTTATTGTGTAGTTTGCAAGAGAAATGATGATATATATCCATACGGTTCTGTTATAGATGATGAAAAAAACATGCACTACCATCTGATCTCTTGCAAATTATTGTATTTTGAATTTAATGCTTTTGTTCAAATTTAGTGTAAATTGCCTATGGTATCTGATGTCCAGAATTCAGGCTTATGTCTAGTAGCTGGACATTTCGTTTTTACGGGCATAGAACAAACTTTTACAGGTCTTGCGACACAGGGGTTTTCTTACTTATAAACCTACTGTTACTAATTCCCTGTTTATATTTTCAAGTTGTTCAAATGTTTCCATGTTTTTTGTTAGTTATTGTTTATTGTTCTGCAATCTATGATGCAATTAATATCCTTACTATTATGATTATCCCGTGATTAATCAAATATATCACCATCTTTCGACTGAGATTGCAGCTCAATTATTTTGTTTTACTTATTAATTATTCGTCTTTATTGAAAATGGTGTCTTAACCACATGATATGTTTATGTTCTATAGGAAAACTGGCGCAGACCTAAGGGTATTGATTCACGTGTGAGGAGAAAGTTTAAGGGATGTACTTTGATGCCAAATATTGGTTATGGATCAGATAAGAAGACTAGACATTATCTACCAAATGGGTTTAAGAAATTTGTTGTTAGCAATGTTAATGATTTGGAACTTCTTATGATGCACAATAGGACTTATTGTGCTGAAATTGCTCACAATGTATCCACTGGAAAGAGAAAGGACATAGTTGAGAGAGCAGCACAACTTGATGTTGTTGTAACGAACAAAACAGCCAGATTAAGAAGCCAAGAGGATGAATAG
Protein sequence

>MS.gene08771.t1

MAVPLLTKKIVKKRVKHFKRPQSDRKICVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVSNVNDLELLMMHNRTYCAEIAHNVSTGKRKDIVERAAQLDVVVTNKTARLRSQEDE