AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene23183


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene23183.t1 MTR_8g036830 86.111 72 10 0 29 100 1 72 1.80e-42 135
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 22 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCTTCTTGTGTTAGAAAT+TGG 0.117758 8.2:+62533787 None:intergenic
CCATGAACATGGGATGAATA+TGG 0.288739 8.2:+62533715 None:intergenic
AATATGGCTTGAAGAAAATA+AGG 0.291272 8.2:+62533731 None:intergenic
GCTTGAAGAAAATAAGGTTT+GGG 0.338713 8.2:+62533737 None:intergenic
GGCTTGAAGAAAATAAGGTT+TGG 0.392638 8.2:+62533736 None:intergenic
TAACACAAGAAGAATCATAA+TGG 0.400261 8.2:-62533779 MS.gene23183:CDS
CCATGTTCATGGAAATTTAG+AGG 0.404305 8.2:-62533704 MS.gene23183:CDS
CCATATTCATCCCATGTTCA+TGG 0.415143 8.2:-62533715 MS.gene23183:CDS
TTCTTCTTGTGTTAGAAATT+GGG 0.416058 8.2:+62533788 None:intergenic
CCACTTTCTTGCTCTTTCCA+CGG 0.452311 8.2:-62533577 MS.gene23183:CDS
CCTCTAAATTTCCATGAACA+TGG 0.482444 8.2:+62533704 None:intergenic
TCTTTCCACGGTCATACAAA+TGG 0.498540 8.2:-62533565 None:intergenic
CTTGTGTTAGAAATTGGGAA+GGG 0.553869 8.2:+62533793 None:intergenic
CTAATGTTCAAACAAAGAAA+CGG 0.561468 8.2:-62533642 MS.gene23183:CDS
CCGTGGAAAGAGCAAGAAAG+TGG 0.561979 8.2:+62533577 None:intergenic
TGTGTTAGAAATTGGGAAGG+GGG 0.568484 8.2:+62533795 None:intergenic
TGAGAGAAAGATGATAACGT+TGG 0.576181 8.2:+62533841 None:intergenic
TTGTGTTAGAAATTGGGAAG+GGG 0.578970 8.2:+62533794 None:intergenic
CTCTAAATTTCCATGAACAT+GGG 0.587547 8.2:+62533705 None:intergenic
TCTTGTGTTAGAAATTGGGA+AGG 0.595691 8.2:+62533792 None:intergenic
CTTGAAGAAAATAAGGTTTG+GGG 0.597299 8.2:+62533738 None:intergenic
GCATACCATTTGTATGACCG+TGG 0.672386 8.2:+62533560 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATATGGCTTGAAGAAAATA+AGG + chr8.2:62533682-62533701 None:intergenic 25.0%
! ATTCTTCTTGTGTTAGAAAT+TGG + chr8.2:62533626-62533645 None:intergenic 25.0%
! CTAATGTTCAAACAAAGAAA+CGG - chr8.2:62533768-62533787 MS.gene23183:CDS 25.0%
! TAACACAAGAAGAATCATAA+TGG - chr8.2:62533631-62533650 MS.gene23183:CDS 25.0%
! TTCTTCTTGTGTTAGAAATT+GGG + chr8.2:62533625-62533644 None:intergenic 25.0%
CTCTAAATTTCCATGAACAT+GGG + chr8.2:62533708-62533727 None:intergenic 30.0%
CTTGAAGAAAATAAGGTTTG+GGG + chr8.2:62533675-62533694 None:intergenic 30.0%
GCTTGAAGAAAATAAGGTTT+GGG + chr8.2:62533676-62533695 None:intergenic 30.0%
! CATAAGAGAAGAACTTTTGT+TGG - chr8.2:62533590-62533609 MS.gene23183:CDS 30.0%
CCATGTTCATGGAAATTTAG+AGG - chr8.2:62533706-62533725 MS.gene23183:CDS 35.0%
CCTCTAAATTTCCATGAACA+TGG + chr8.2:62533709-62533728 None:intergenic 35.0%
CTTGTGTTAGAAATTGGGAA+GGG + chr8.2:62533620-62533639 None:intergenic 35.0%
GGCTTGAAGAAAATAAGGTT+TGG + chr8.2:62533677-62533696 None:intergenic 35.0%
TCTTGTGTTAGAAATTGGGA+AGG + chr8.2:62533621-62533640 None:intergenic 35.0%
TTGTGTTAGAAATTGGGAAG+GGG + chr8.2:62533619-62533638 None:intergenic 35.0%
! TGAGAGAAAGATGATAACGT+TGG + chr8.2:62533572-62533591 None:intergenic 35.0%
CCATATTCATCCCATGTTCA+TGG - chr8.2:62533695-62533714 MS.gene23183:CDS 40.0%
CCATGAACATGGGATGAATA+TGG + chr8.2:62533698-62533717 None:intergenic 40.0%
TGTGTTAGAAATTGGGAAGG+GGG + chr8.2:62533618-62533637 None:intergenic 40.0%
CCACTTTCTTGCTCTTTCCA+CGG - chr8.2:62533833-62533852 MS.gene23183:CDS 45.0%
CCGTGGAAAGAGCAAGAAAG+TGG + chr8.2:62533836-62533855 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 62533566 62533866 62533566 ID=MS.gene23183
chr8.2 mRNA 62533566 62533866 62533566 ID=MS.gene23183.t1;Parent=MS.gene23183
chr8.2 exon 62533566 62533866 62533566 ID=MS.gene23183.t1.exon1;Parent=MS.gene23183.t1
chr8.2 CDS 62533566 62533866 62533566 ID=cds.MS.gene23183.t1;Parent=MS.gene23183.t1
Gene Sequence

>MS.gene23183

AATCCAACGTTATCATCTTTCTCTCATAAGAGAAGAACTTTTGTTGGTGCCCCCTTCCCAATTTCTAACACAAGAAGAATCATAATGGATTTTGCAGTTAAATTATCCCCAAACCTTATTTTCTTCAAGCCATATTCATCCCATGTTCATGGAAATTTAGAGGTCAAGTGCTGTTCACAGTCACAAAGCAGAGAAACTACATCTAATGTTCAAACAAAGAAACGGTGTTTGAGATGCAATACTCTTTATTCAGATCAACATAATTCTCCACTTTCTTGCTCTTTCCACGGTCATACAAATG

Protein sequence

>MS.gene23183.t1

NPTLSSFSHKRRTFVGAPFPISNTRRIIMDFAVKLSPNLIFFKPYSSHVHGNLEVKCCSQSQSRETTSNVQTKKRCLRCNTLYSDQHNSPLSCSFHGHTN