AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene86059


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene86059.t1 MTR_6g013210 100.000 65 0 0 1 65 1 65 8.41e-42 130
MS.gene86059.t1 MTR_4g081180 90.769 65 6 0 1 65 150 214 8.23e-36 119
MS.gene86059.t1 MTR_6g013410 81.538 65 11 1 1 65 38 101 4.19e-31 104
MS.gene86059.t1 MTR_8g089765 71.667 60 17 0 1 60 1 60 5.17e-25 89.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene86059.t1 AT5G03850 90.769 65 5 1 1 65 1 64 1.28e-35 114
MS.gene86059.t1 AT3G10090 90.769 65 5 1 1 65 1 64 1.28e-35 114
MS.gene86059.t1 AT5G64140 89.231 65 6 1 1 65 1 64 1.09e-34 112

Find 19 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTGTTGTTGTGAAAGTTAT+GGG 0.420809 6.3:+8403729 MS.gene86059:CDS
AGGATGTCTCCCTCCCTAAC+TGG 0.425936 6.3:-8403840 None:intergenic
TGCTGTTGTTGTGAAAGTTA+TGG 0.441002 6.3:+8403728 MS.gene86059:CDS
GAGTCTTCTTGCTTCTCTCT+CGG 0.464434 6.3:-8403877 None:intergenic
GAATGTGAAGGGACCAGTTA+GGG 0.464736 6.3:+8403827 MS.gene86059:CDS
AACCTGAGTGACTTGTCCTC+TGG 0.467654 6.3:-8403763 None:intergenic
GGAATGTGAAGGGACCAGTT+AGG 0.473428 6.3:+8403826 MS.gene86059:CDS
TTGCTTCTCTCTCGGACTCA+AGG 0.492027 6.3:-8403869 None:intergenic
TCTCGGACTCAAGGAGGGTA+AGG 0.523556 6.3:-8403860 None:intergenic
ATCAAAATCGTCACATCATG+AGG 0.548592 6.3:+8403805 MS.gene86059:CDS
GTGAAAGTTATGGGTCGCAC+TGG 0.579551 6.3:+8403738 MS.gene86059:CDS
TGTGAAGGGACCAGTTAGGG+AGG 0.582336 6.3:+8403830 MS.gene86059:CDS
CTTCTCTCTCGGACTCAAGG+AGG 0.604153 6.3:-8403866 None:intergenic
TTCTCTCTCGGACTCAAGGA+GGG 0.617751 6.3:-8403865 None:intergenic
TCACATCATGAGGAATGTGA+AGG 0.626309 6.3:+8403815 MS.gene86059:CDS
CACATCATGAGGAATGTGAA+GGG 0.632733 6.3:+8403816 MS.gene86059:CDS
ATCCAGAGGACAAGTCACTC+AGG 0.638739 6.3:+8403761 MS.gene86059:CDS
GTGAAGGGACCAGTTAGGGA+GGG 0.647685 6.3:+8403831 MS.gene86059:CDS
ATGGGTCGCACTGGATCCAG+AGG 0.658326 6.3:+8403747 MS.gene86059:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATCAAAATCGTCACATCATG+AGG + chr6.3:8403805-8403824 MS.gene86059:CDS 35.0%
GCTGTTGTTGTGAAAGTTAT+GGG + chr6.3:8403729-8403748 MS.gene86059:CDS 35.0%
TGCTGTTGTTGTGAAAGTTA+TGG + chr6.3:8403728-8403747 MS.gene86059:CDS 35.0%
! TCAGGTTAGAGTGAAGTTTT+TGG + chr6.3:8403779-8403798 MS.gene86059:CDS 35.0%
CACATCATGAGGAATGTGAA+GGG + chr6.3:8403816-8403835 MS.gene86059:CDS 40.0%
TCACATCATGAGGAATGTGA+AGG + chr6.3:8403815-8403834 MS.gene86059:CDS 40.0%
GAATGTGAAGGGACCAGTTA+GGG + chr6.3:8403827-8403846 MS.gene86059:CDS 45.0%
GAGTCTTCTTGCTTCTCTCT+CGG - chr6.3:8403880-8403899 None:intergenic 45.0%
ATCCAGAGGACAAGTCACTC+AGG + chr6.3:8403761-8403780 MS.gene86059:CDS 50.0%
GGAATGTGAAGGGACCAGTT+AGG + chr6.3:8403826-8403845 MS.gene86059:CDS 50.0%
GTGAAAGTTATGGGTCGCAC+TGG + chr6.3:8403738-8403757 MS.gene86059:CDS 50.0%
TTCTCTCTCGGACTCAAGGA+GGG - chr6.3:8403868-8403887 None:intergenic 50.0%
TTGCTTCTCTCTCGGACTCA+AGG - chr6.3:8403872-8403891 None:intergenic 50.0%
! AACCTGAGTGACTTGTCCTC+TGG - chr6.3:8403766-8403785 None:intergenic 50.0%
AGGATGTCTCCCTCCCTAAC+TGG - chr6.3:8403843-8403862 None:intergenic 55.0%
CTTCTCTCTCGGACTCAAGG+AGG - chr6.3:8403869-8403888 None:intergenic 55.0%
GTGAAGGGACCAGTTAGGGA+GGG + chr6.3:8403831-8403850 MS.gene86059:CDS 55.0%
TCTCGGACTCAAGGAGGGTA+AGG - chr6.3:8403863-8403882 None:intergenic 55.0%
TGTGAAGGGACCAGTTAGGG+AGG + chr6.3:8403830-8403849 MS.gene86059:CDS 55.0%
ATGGGTCGCACTGGATCCAG+AGG + chr6.3:8403747-8403766 MS.gene86059:CDS 60.0%


Chromosome Type Strat End Strand Name
chr6.3 gene 8403708 8403905 8403708 ID=MS.gene86059
chr6.3 mRNA 8403708 8403905 8403708 ID=MS.gene86059.t1;Parent=MS.gene86059
chr6.3 exon 8403708 8403905 8403708 ID=MS.gene86059.t1.exon1;Parent=MS.gene86059.t1
chr6.3 CDS 8403708 8403905 8403708 ID=cds.MS.gene86059.t1;Parent=MS.gene86059.t1
Gene Sequence

>MS.gene86059

ATGGAATCACAGATTAAGCATGCTGTTGTTGTGAAAGTTATGGGTCGCACTGGATCCAGAGGACAAGTCACTCAGGTTAGAGTGAAGTTTTTGGACGATCAAAATCGTCACATCATGAGGAATGTGAAGGGACCAGTTAGGGAGGGAGACATCCTTACCCTCCTTGAGTCCGAGAGAGAAGCAAGAAGACTCCGATAG

Protein sequence

>MS.gene86059.t1

MESQIKHAVVVKVMGRTGSRGQVTQVRVKFLDDQNRHIMRNVKGPVREGDILTLLESEREARRLR