AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene90755

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene90755.t1 MTR_7g057770 95.789 95 4 0 1 95 1 95 7.49e-64 192
MS.gene90755.t1 MTR_1g023590 95.789 95 4 0 1 95 1 95 1.44e-63 192
MS.gene90755.t1 MTR_5g083790 91.579 95 8 0 1 95 1 95 5.30e-61 185
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene90755.t1 AT5G48760 90.526 95 9 0 1 95 1 95 5.08e-61 185
MS.gene90755.t1 AT5G48760 90.526 95 9 0 1 95 1 95 5.08e-61 185
MS.gene90755.t1 AT3G07110 88.421 95 11 0 1 95 1 95 3.44e-60 183
MS.gene90755.t1 AT3G07110 88.421 95 11 0 1 95 1 95 3.60e-60 183
MS.gene90755.t1 AT3G24830 88.421 95 11 0 1 95 1 95 1.77e-59 181
MS.gene90755.t1 AT4G13170 88.421 95 11 0 1 95 1 95 4.75e-59 180

Find 26 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCATGGTCCTATTCACTTTA+GGG 0.192347 1.3:-1658507 MS.gene90755:CDS
CTCATGGTCCTATTCACTTT+AGG 0.198145 1.3:-1658508 MS.gene90755:CDS
GGGCTCCCTCTAAGATCTTT+TGG 0.279612 1.3:-1658487 MS.gene90755:CDS
GACGGCCGAGCATGTGGTGG+CGG 0.371739 1.3:+1658675 None:intergenic
TTTGTTGATTGGATTATAAT+GGG 0.383286 1.3:-1658416 MS.gene90755:CDS
TGTGAAGAAATTTGTGCTTC+AGG 0.399041 1.3:-1658596 MS.gene90755:CDS
TGAAGTATATGAGATTTCTA+AGG 0.407625 1.3:-1658553 MS.gene90755:CDS
GAGGGAGCCCTAAAGTGAAT+AGG 0.470476 1.3:+1658500 None:intergenic
ATATGAGATTTCTAAGGAAG+AGG 0.501956 1.3:-1658547 MS.gene90755:CDS
CTTAGCGCATATGCCTGATC+CGG 0.515048 1.3:+1658715 None:intergenic
GACGCCCGCCACCACATGCT+CGG 0.519214 1.3:-1658680 MS.gene90755:CDS
ACGGCCGAGCATGTGGTGGC+GGG 0.522437 1.3:+1658676 None:intergenic
AGTGCGCCAAAAGATCTTAG+AGG 0.534021 1.3:+1658481 None:intergenic
GAGAAGCTCCTTTGCGACAA+TGG 0.544115 1.3:+1658646 None:intergenic
ATGAATACTAAACCTTCTCA+TGG 0.560213 1.3:-1658524 MS.gene90755:CDS
GTCGCAAAGGAGCTTCTCAA+TGG 0.561981 1.3:-1658641 MS.gene90755:CDS
AGGCAAGACGGCCGAGCATG+TGG 0.572354 1.3:+1658669 None:intergenic
TCTTGCCTCCATTGTCGCAA+AGG 0.579194 1.3:-1658654 MS.gene90755:CDS
GGAGCTTCTCAATGGTCAGA+AGG 0.600116 1.3:-1658633 MS.gene90755:CDS
GTGCGCCAAAAGATCTTAGA+GGG 0.602717 1.3:+1658482 None:intergenic
CAAGACGGCCGAGCATGTGG+TGG 0.603581 1.3:+1658672 None:intergenic
TTGCGACAATGGAGGCAAGA+CGG 0.613146 1.3:+1658657 None:intergenic
AAGCTCCTTTGCGACAATGG+AGG 0.645821 1.3:+1658649 None:intergenic
GCTTCTCAATGGTCAGAAGG+TGG 0.662927 1.3:-1658630 MS.gene90755:CDS
AAGTGAATAGGACCATGAGA+AGG 0.669515 1.3:+1658512 None:intergenic
GAAGAAATTTGTGCTTCAGG+TGG 0.691821 1.3:-1658593 MS.gene90755:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTGTTGATTGGATTATAAT+GGG - chr1.3:1658715-1658734 MS.gene90755:CDS 20.0%
!!! TTTTATTGTGTTTTGTTGAT+TGG - chr1.3:1658704-1658723 MS.gene90755:CDS 20.0%
!!! TTTTGTTGATTGGATTATAA+TGG - chr1.3:1658714-1658733 MS.gene90755:CDS 20.0%
! TGAAGTATATGAGATTTCTA+AGG - chr1.3:1658578-1658597 MS.gene90755:CDS 25.0%
ATGAATACTAAACCTTCTCA+TGG - chr1.3:1658607-1658626 MS.gene90755:CDS 30.0%
! ATATGAGATTTCTAAGGAAG+AGG - chr1.3:1658584-1658603 MS.gene90755:CDS 30.0%
TCATGGTCCTATTCACTTTA+GGG - chr1.3:1658624-1658643 MS.gene90755:CDS 35.0%
TGTGAAGAAATTTGTGCTTC+AGG - chr1.3:1658535-1658554 MS.gene90755:CDS 35.0%
AAGTGAATAGGACCATGAGA+AGG + chr1.3:1658622-1658641 None:intergenic 40.0%
CTCATGGTCCTATTCACTTT+AGG - chr1.3:1658623-1658642 MS.gene90755:CDS 40.0%
GAAGAAATTTGTGCTTCAGG+TGG - chr1.3:1658538-1658557 MS.gene90755:CDS 40.0%
AGTGCGCCAAAAGATCTTAG+AGG + chr1.3:1658653-1658672 None:intergenic 45.0%
GTGCGCCAAAAGATCTTAGA+GGG + chr1.3:1658652-1658671 None:intergenic 45.0%
AAGCTCCTTTGCGACAATGG+AGG + chr1.3:1658485-1658504 None:intergenic 50.0%
CTTAGCGCATATGCCTGATC+CGG + chr1.3:1658419-1658438 None:intergenic 50.0%
GAGAAGCTCCTTTGCGACAA+TGG + chr1.3:1658488-1658507 None:intergenic 50.0%
GAGGGAGCCCTAAAGTGAAT+AGG + chr1.3:1658634-1658653 None:intergenic 50.0%
GCTTCTCAATGGTCAGAAGG+TGG - chr1.3:1658501-1658520 MS.gene90755:CDS 50.0%
GGAGCTTCTCAATGGTCAGA+AGG - chr1.3:1658498-1658517 MS.gene90755:CDS 50.0%
GTCGCAAAGGAGCTTCTCAA+TGG - chr1.3:1658490-1658509 MS.gene90755:CDS 50.0%
TCTTGCCTCCATTGTCGCAA+AGG - chr1.3:1658477-1658496 MS.gene90755:CDS 50.0%
TTGCGACAATGGAGGCAAGA+CGG + chr1.3:1658477-1658496 None:intergenic 50.0%
! ATCTTTTGGCGCACTGTTCG+TGG - chr1.3:1658658-1658677 MS.gene90755:CDS 50.0%
! TCTTTTGGCGCACTGTTCGT+GGG - chr1.3:1658659-1658678 MS.gene90755:CDS 50.0%
!!! GGGCTCCCTCTAAGATCTTT+TGG - chr1.3:1658644-1658663 MS.gene90755:CDS 50.0%
AGGCAAGACGGCCGAGCATG+TGG + chr1.3:1658465-1658484 None:intergenic 65.0%
CAAGACGGCCGAGCATGTGG+TGG + chr1.3:1658462-1658481 None:intergenic 65.0%
ACGGCCGAGCATGTGGTGGC+GGG + chr1.3:1658458-1658477 None:intergenic 70.0%
GACGCCCGCCACCACATGCT+CGG - chr1.3:1658451-1658470 MS.gene90755:CDS 70.0%
GACGGCCGAGCATGTGGTGG+CGG + chr1.3:1658459-1658478 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 1658409 1658744 1658409 ID=MS.gene90755
chr1.3 mRNA 1658409 1658744 1658409 ID=MS.gene90755.t1;Parent=MS.gene90755
chr1.3 exon 1658409 1658744 1658409 ID=MS.gene90755.t1.exon1;Parent=MS.gene90755.t1
chr1.3 CDS 1658409 1658744 1658409 ID=cds.MS.gene90755.t1;Parent=MS.gene90755.t1
Gene Sequence

>MS.gene90755

ATGGTTTCCGGATCAGGCATATGCGCTAAGAGAGTCGTGATCGACGCCCGCCACCACATGCTCGGCCGTCTTGCCTCCATTGTCGCAAAGGAGCTTCTCAATGGTCAGAAGGTGGTTCTTGTCAGATGTGAAGAAATTTGTGCTTCAGGTGGTCTTGTTAGACAGAAGATGAAGTATATGAGATTTCTAAGGAAGAGGATGAATACTAAACCTTCTCATGGTCCTATTCACTTTAGGGCTCCCTCTAAGATCTTTTGGCGCACTGTTCGTGGGTTAGTCACAAATTTACTTGTGATTTTATTGTGTTTTGTTGATTGGATTATAATGGGTTTTTGA
Protein sequence

>MS.gene90755.t1

MVSGSGICAKRVVIDARHHMLGRLASIVAKELLNGQKVVLVRCEEICASGGLVRQKMKYMRFLRKRMNTKPSHGPIHFRAPSKIFWRTVRGLVTNLLVILLCFVDWIIMGF