AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene07343

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07343.t1 MTR_1g086450 84.483 116 16 2 1 114 1 116 9.68e-45 141
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 18 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGAGGAGGAAGAAGAAGATA+TGG 0.309577 1.2:+65115716 MS.gene07343:CDS
CATGTAGTTCTAATTCTCTT+TGG 0.322108 1.2:-65115797 None:intergenic
ATATGGAGATAGAGAAGTTT+TGG 0.338856 1.2:+65115733 MS.gene07343:CDS
CTTCCTCCTCGTTCTTATTG+AGG 0.398320 1.2:-65115704 None:intergenic
CTCTTTGGCGTAGTCGATCA+CGG 0.421114 1.2:-65115782 None:intergenic
ACGATTAAAGAGCAAGTTTG+AGG 0.460676 1.2:-65115998 None:intergenic
AAAGAGCAAGTTTGAGGTCA+AGG 0.490588 1.2:-65115992 None:intergenic
ATTAGAACTACATGATCAGC+TGG 0.513153 1.2:+65115806 MS.gene07343:CDS
AAATAACAAAGTTGAGAAGA+AGG 0.516605 1.2:+65115962 MS.gene07343:CDS
TCTTTGGCGTAGTCGATCAC+GGG 0.543652 1.2:-65115781 None:intergenic
AAGAGCAAGTTTGAGGTCAA+GGG 0.558615 1.2:-65115991 None:intergenic
CTGGGTTGAGAAAATTCAAA+GGG 0.581353 1.2:-65115917 None:intergenic
ACTGGGTTGAGAAAATTCAA+AGG 0.609073 1.2:-65115918 None:intergenic
AAGTCCTGCAATTCAAAACA+AGG 0.614434 1.2:-65115867 None:intergenic
GTAGTCGATCACGGGCGTCA+CGG 0.615898 1.2:-65115773 None:intergenic
TGTCCTCAATAAGAACGAGG+AGG 0.708771 1.2:+65115701 MS.gene07343:CDS
TAATGTCCTCAATAAGAACG+AGG 0.718289 1.2:+65115698 MS.gene07343:CDS
TATGGAAAACAAGAAGAACG+AGG 0.749778 1.2:+65115671 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAATAACAAAGTTGAGAAGA+AGG + chr1.2:65115962-65115981 MS.gene07343:CDS 25.0%
! ATATGGAGATAGAGAAGTTT+TGG + chr1.2:65115733-65115752 MS.gene07343:CDS 30.0%
!! ATGATTTTGTCATTTGCAAC+TGG - chr1.2:65115939-65115958 None:intergenic 30.0%
!! CATGTAGTTCTAATTCTCTT+TGG - chr1.2:65115800-65115819 None:intergenic 30.0%
!! TGATTTTGTCATTTGCAACT+GGG - chr1.2:65115938-65115957 None:intergenic 30.0%
AAGTCCTGCAATTCAAAACA+AGG - chr1.2:65115870-65115889 None:intergenic 35.0%
ATTAGAACTACATGATCAGC+TGG + chr1.2:65115806-65115825 MS.gene07343:CDS 35.0%
TAATGTCCTCAATAAGAACG+AGG + chr1.2:65115698-65115717 MS.gene07343:CDS 35.0%
! ACTGGGTTGAGAAAATTCAA+AGG - chr1.2:65115921-65115940 None:intergenic 35.0%
! CTGGGTTGAGAAAATTCAAA+GGG - chr1.2:65115920-65115939 None:intergenic 35.0%
! AAAGAGCAAGTTTGAGGTCA+AGG - chr1.2:65115995-65116014 None:intergenic 40.0%
! AAGAGCAAGTTTGAGGTCAA+GGG - chr1.2:65115994-65116013 None:intergenic 40.0%
!!! AGAGCCTTGTTTTGAATTGC+AGG + chr1.2:65115863-65115882 MS.gene07343:CDS 40.0%
CGAGGAGGAAGAAGAAGATA+TGG + chr1.2:65115716-65115735 MS.gene07343:CDS 45.0%
CTTCCTCCTCGTTCTTATTG+AGG - chr1.2:65115707-65115726 None:intergenic 45.0%
TGTCCTCAATAAGAACGAGG+AGG + chr1.2:65115701-65115720 MS.gene07343:CDS 45.0%
CTCTTTGGCGTAGTCGATCA+CGG - chr1.2:65115785-65115804 None:intergenic 50.0%
TCTTTGGCGTAGTCGATCAC+GGG - chr1.2:65115784-65115803 None:intergenic 50.0%
GTAGTCGATCACGGGCGTCA+CGG - chr1.2:65115776-65115795 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 65115672 65116016 65115672 ID=MS.gene07343
chr1.2 mRNA 65115672 65116016 65115672 ID=MS.gene07343.t1;Parent=MS.gene07343
chr1.2 exon 65115672 65116016 65115672 ID=MS.gene07343.t1.exon1;Parent=MS.gene07343.t1
chr1.2 CDS 65115672 65116016 65115672 ID=cds.MS.gene07343.t1;Parent=MS.gene07343.t1
Gene Sequence

>MS.gene07343

ATGGAAAACAAGAAGAACGAGGAAAATAATGTCCTCAATAAGAACGAGGAGGAAGAAGAAGATATGGAGATAGAGAAGTTTTGGTCGCTGCTGAGAAACTTCCGTGACGCCCGTGATCGACTACGCCAAAGAGAATTAGAACTACATGATCAGCTGGAAAAATACGAGAGCAACAAGAAAAAGATGAAAACAGAGCCTTGTTTTGAATTGCAGGACTTTACTACAGATGTTCAATTCAGAAAACTCCCTTTGAATTTTCTCAACCCAGTTGCAAATGACAAAATCATAGAAAATAACAAAGTTGAGAAGAAGGAACATACCCTTGACCTCAAACTTGCTCTTTAA
Protein sequence

>MS.gene07343.t1

MENKKNEENNVLNKNEEEEEDMEIEKFWSLLRNFRDARDRLRQRELELHDQLEKYESNKKKMKTEPCFELQDFTTDVQFRKLPLNFLNPVANDKIIENNKVEKKEHTLDLKLAL