AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene052856


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene052856.t1 MTR_1g035700 92.035 113 9 0 1 113 1 113 1.16e-71 215
MS.gene052856.t1 MTR_1g035700 92.035 113 9 0 1 113 1 113 1.21e-71 215
MS.gene052856.t1 MTR_1g035700 92.035 113 9 0 1 113 1 113 8.00e-71 214
MS.gene052856.t1 MTR_4g074120 58.407 113 43 2 1 111 1 111 3.29e-35 121
MS.gene052856.t1 MTR_4g074120 58.407 113 43 2 1 111 1 111 6.32e-35 121
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 28 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTCCAATGGGAAATTATTT+TGG 0.109896 1.4:-20256874 MS.gene052856:CDS
CTTCTTGTTGATTCTGTTCC+TGG 0.126351 1.4:-20256745 MS.gene052856:CDS
GGAATTCAAGCGTTGTTAAT+AGG 0.287605 1.4:-20256813 MS.gene052856:CDS
GGGTTGAATAATGATACTTC+TGG 0.310719 1.4:-20256853 MS.gene052856:CDS
TGTTGATGAACAGTATAAAT+TGG 0.341813 1.4:-20256686 MS.gene052856:CDS
ATATGAATTCATCTTTGAAT+TGG 0.346328 1.4:-20256948 MS.gene052856:CDS
TTCTGGGATGATGATGTATT+CGG 0.353610 1.4:-20256836 MS.gene052856:CDS
TTTCCCATTGGAACCATCTC+AGG 0.412066 1.4:+20256883 None:intergenic
TCTGGGATGATGATGTATTC+GGG 0.440187 1.4:-20256835 MS.gene052856:CDS
CATGCAATATCATTTGAATC+TGG 0.456790 1.4:-20256925 MS.gene052856:CDS
ATTGAAGCATGATGCAGGTT+TGG 0.461747 1.4:-20256722 MS.gene052856:CDS
GGTTGAATAATGATACTTCT+GGG 0.485200 1.4:-20256852 MS.gene052856:CDS
TGTTAGTAGCTTGCCTGAGA+TGG 0.491391 1.4:-20256896 MS.gene052856:CDS
AACCCAAAATAATTTCCCAT+TGG 0.495621 1.4:+20256871 None:intergenic
CCTGGATTGAAGCATGATGC+AGG 0.497346 1.4:-20256727 MS.gene052856:CDS
TTCGTCTGTTATGAGTCAAC+GGG 0.510025 1.4:-20256788 MS.gene052856:CDS
CCTGCATCATGCTTCAATCC+AGG 0.527886 1.4:+20256727 None:intergenic
CTTGCCTGAGATGGTTCCAA+TGG 0.539348 1.4:-20256887 MS.gene052856:CDS
AGTCAACGGGAATATGTGTC+TGG 0.557263 1.4:-20256775 MS.gene052856:CDS
AACAGTATAAATTGGAGGAG+GGG 0.559930 1.4:-20256678 MS.gene052856:CDS
TGAACAGTATAAATTGGAGG+AGG 0.569871 1.4:-20256680 MS.gene052856:CDS
TTGCCTGAGATGGTTCCAAT+GGG 0.573001 1.4:-20256886 MS.gene052856:CDS
GTTCGTCTGTTATGAGTCAA+CGG 0.597007 1.4:-20256789 MS.gene052856:CDS
TGATGAACAGTATAAATTGG+AGG 0.605084 1.4:-20256683 MS.gene052856:CDS
GAACAGTATAAATTGGAGGA+GGG 0.605834 1.4:-20256679 MS.gene052856:CDS
ATGCAGGTTTGGCTGCTGAG+TGG 0.614045 1.4:-20256711 MS.gene052856:CDS
GCAATATCATTTGAATCTGG+TGG 0.655444 1.4:-20256922 MS.gene052856:CDS
CTGGGATGATGATGTATTCG+GGG 0.667463 1.4:-20256834 MS.gene052856:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATGAATTCATCTTTGAAT+TGG - chr1.4:20256703-20256722 MS.gene052856:CDS 20.0%
!!! TCAAATACTGATTTTCATTA+TGG - chr1.4:20256678-20256697 MS.gene052856:CDS 20.0%
!! TGTTGATGAACAGTATAAAT+TGG - chr1.4:20256965-20256984 MS.gene052856:CDS 25.0%
!! TTCCAATGGGAAATTATTTT+GGG - chr1.4:20256778-20256797 MS.gene052856:CDS 25.0%
AACCCAAAATAATTTCCCAT+TGG + chr1.4:20256783-20256802 None:intergenic 30.0%
CATGCAATATCATTTGAATC+TGG - chr1.4:20256726-20256745 MS.gene052856:CDS 30.0%
GGTTGAATAATGATACTTCT+GGG - chr1.4:20256799-20256818 MS.gene052856:CDS 30.0%
TGATGAACAGTATAAATTGG+AGG - chr1.4:20256968-20256987 MS.gene052856:CDS 30.0%
! GTTCCAATGGGAAATTATTT+TGG - chr1.4:20256777-20256796 MS.gene052856:CDS 30.0%
AACAGTATAAATTGGAGGAG+GGG - chr1.4:20256973-20256992 MS.gene052856:CDS 35.0%
GAACAGTATAAATTGGAGGA+GGG - chr1.4:20256972-20256991 MS.gene052856:CDS 35.0%
GCAATATCATTTGAATCTGG+TGG - chr1.4:20256729-20256748 MS.gene052856:CDS 35.0%
GGGTTGAATAATGATACTTC+TGG - chr1.4:20256798-20256817 MS.gene052856:CDS 35.0%
TGAACAGTATAAATTGGAGG+AGG - chr1.4:20256971-20256990 MS.gene052856:CDS 35.0%
! GGAATTCAAGCGTTGTTAAT+AGG - chr1.4:20256838-20256857 MS.gene052856:CDS 35.0%
!! TTCTGGGATGATGATGTATT+CGG - chr1.4:20256815-20256834 MS.gene052856:CDS 35.0%
ATTGAAGCATGATGCAGGTT+TGG - chr1.4:20256929-20256948 MS.gene052856:CDS 40.0%
GTTCGTCTGTTATGAGTCAA+CGG - chr1.4:20256862-20256881 MS.gene052856:CDS 40.0%
TTCGTCTGTTATGAGTCAAC+GGG - chr1.4:20256863-20256882 MS.gene052856:CDS 40.0%
! TCTGGGATGATGATGTATTC+GGG - chr1.4:20256816-20256835 MS.gene052856:CDS 40.0%
!! CTTCTTGTTGATTCTGTTCC+TGG - chr1.4:20256906-20256925 MS.gene052856:CDS 40.0%
AGTCAACGGGAATATGTGTC+TGG - chr1.4:20256876-20256895 MS.gene052856:CDS 45.0%
TTGCCTGAGATGGTTCCAAT+GGG - chr1.4:20256765-20256784 MS.gene052856:CDS 45.0%
TTTCCCATTGGAACCATCTC+AGG + chr1.4:20256771-20256790 None:intergenic 45.0%
! CTGGGATGATGATGTATTCG+GGG - chr1.4:20256817-20256836 MS.gene052856:CDS 45.0%
! TGTTAGTAGCTTGCCTGAGA+TGG - chr1.4:20256755-20256774 MS.gene052856:CDS 45.0%
CCTGCATCATGCTTCAATCC+AGG + chr1.4:20256927-20256946 None:intergenic 50.0%
CCTGGATTGAAGCATGATGC+AGG - chr1.4:20256924-20256943 MS.gene052856:CDS 50.0%
CTTGCCTGAGATGGTTCCAA+TGG - chr1.4:20256764-20256783 MS.gene052856:CDS 50.0%
ATGCAGGTTTGGCTGCTGAG+TGG - chr1.4:20256940-20256959 MS.gene052856:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 20256666 20257007 20256666 ID=MS.gene052856
chr1.4 mRNA 20256666 20257007 20256666 ID=MS.gene052856.t1;Parent=MS.gene052856
chr1.4 exon 20256666 20257007 20256666 ID=MS.gene052856.t1.exon1;Parent=MS.gene052856.t1
chr1.4 CDS 20256666 20257007 20256666 ID=cds.MS.gene052856.t1;Parent=MS.gene052856.t1
Gene Sequence

>MS.gene052856

ATGGCAGCAGAGTCAAATACTGATTTTCATTATGGTGATATGAATTCATCTTTGAATTGGCATGCAATATCATTTGAATCTGGTGGTGTTGTTAGTAGCTTGCCTGAGATGGTTCCAATGGGAAATTATTTTGGGTTGAATAATGATACTTCTGGGATGATGATGTATTCGGGGAATTCAAGCGTTGTTAATAGGAGTTCGTCTGTTATGAGTCAACGGGAATATGTGTCTGGCTGTTCTCTTCTTGTTGATTCTGTTCCTGGATTGAAGCATGATGCAGGTTTGGCTGCTGAGTGGTCTGTTGATGAACAGTATAAATTGGAGGAGGGGCTTCTCAAGTAA

Protein sequence

>MS.gene052856.t1

MAAESNTDFHYGDMNSSLNWHAISFESGGVVSSLPEMVPMGNYFGLNNDTSGMMMYSGNSSVVNRSSSVMSQREYVSGCSLLVDSVPGLKHDAGLAAEWSVDEQYKLEEGLLK