AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene69814


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69814.t1 MTR_6g013210 100.000 65 0 0 1 65 1 65 8.41e-42 130
MS.gene69814.t1 MTR_4g081180 90.769 65 6 0 1 65 150 214 8.23e-36 119
MS.gene69814.t1 MTR_6g013410 81.538 65 11 1 1 65 38 101 4.19e-31 104
MS.gene69814.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.gene69814.t1 AT5G03850 90.769 65 5 1 1 65 1 64 1.28e-35 114
MS.gene69814.t1 AT3G10090 90.769 65 5 1 1 65 1 64 1.28e-35 114
MS.gene69814.t1 AT5G64140 89.231 65 6 1 1 65 1 64 1.09e-34 112

Find 20 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTGTTGTTGTGAAAGTTAT+GGG 0.420809 2.4:+16352854 MS.gene69814:CDS
AGGATGTCTCCCTCCCTAAC+TGG 0.425936 2.4:-16352965 None:intergenic
TGCTGTTGTTGTGAAAGTTA+TGG 0.441002 2.4:+16352853 MS.gene69814:CDS
TTATGGGTCGTACTGGATCC+AGG 0.451262 2.4:+16352870 MS.gene69814:CDS
AACCTGAGTGACTTGTCCCC+TGG 0.461687 2.4:-16352888 None:intergenic
GAATGTGAAGGGACCAGTTA+GGG 0.464736 2.4:+16352952 MS.gene69814:CDS
GGAATGTGAAGGGACCAGTT+AGG 0.473428 2.4:+16352951 MS.gene69814:CDS
TCTCAGACTCGAGGAGGGTA+AGG 0.488938 2.4:-16352985 None:intergenic
GTGAAAGTTATGGGTCGTAC+TGG 0.530087 2.4:+16352863 MS.gene69814:CDS
TGTGAAGGGACCAGTTAGGG+AGG 0.582336 2.4:+16352955 MS.gene69814:CDS
ATCAGAATCGTCACATCATG+AGG 0.584464 2.4:+16352930 MS.gene69814:CDS
TTGCTTCTCTCTCAGACTCG+AGG 0.586554 2.4:-16352994 None:intergenic
CTTCTCTCTCAGACTCGAGG+AGG 0.606831 2.4:-16352991 None:intergenic
TATGGGTCGTACTGGATCCA+GGG 0.613108 2.4:+16352871 MS.gene69814:CDS
TCACATCATGAGGAATGTGA+AGG 0.626309 2.4:+16352940 MS.gene69814:CDS
CACATCATGAGGAATGTGAA+GGG 0.632733 2.4:+16352941 MS.gene69814:CDS
ATCCAGGGGACAAGTCACTC+AGG 0.638739 2.4:+16352886 MS.gene69814:CDS
TTCTCTCTCAGACTCGAGGA+GGG 0.644799 2.4:-16352990 None:intergenic
GTGAAGGGACCAGTTAGGGA+GGG 0.647685 2.4:+16352956 MS.gene69814:CDS
ATGGGTCGTACTGGATCCAG+GGG 0.674814 2.4:+16352872 MS.gene69814:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GCTGTTGTTGTGAAAGTTAT+GGG + chr2.4:16352854-16352873 MS.gene69814:CDS 35.0%
TGCTGTTGTTGTGAAAGTTA+TGG + chr2.4:16352853-16352872 MS.gene69814:CDS 35.0%
! TCAGGTTAGAGTGAAGTTTT+TGG + chr2.4:16352904-16352923 MS.gene69814:CDS 35.0%
ATCAGAATCGTCACATCATG+AGG + chr2.4:16352930-16352949 MS.gene69814:CDS 40.0%
CACATCATGAGGAATGTGAA+GGG + chr2.4:16352941-16352960 MS.gene69814:CDS 40.0%
TCACATCATGAGGAATGTGA+AGG + chr2.4:16352940-16352959 MS.gene69814:CDS 40.0%
GAATGTGAAGGGACCAGTTA+GGG + chr2.4:16352952-16352971 MS.gene69814:CDS 45.0%
GTGAAAGTTATGGGTCGTAC+TGG + chr2.4:16352863-16352882 MS.gene69814:CDS 45.0%
GGAATGTGAAGGGACCAGTT+AGG + chr2.4:16352951-16352970 MS.gene69814:CDS 50.0%
TATGGGTCGTACTGGATCCA+GGG + chr2.4:16352871-16352890 MS.gene69814:CDS 50.0%
TTATGGGTCGTACTGGATCC+AGG + chr2.4:16352870-16352889 MS.gene69814:CDS 50.0%
TTCTCTCTCAGACTCGAGGA+GGG - chr2.4:16352993-16353012 None:intergenic 50.0%
TTGCTTCTCTCTCAGACTCG+AGG - chr2.4:16352997-16353016 None:intergenic 50.0%
AGGATGTCTCCCTCCCTAAC+TGG - chr2.4:16352968-16352987 None:intergenic 55.0%
ATCCAGGGGACAAGTCACTC+AGG + chr2.4:16352886-16352905 MS.gene69814:CDS 55.0%
ATGGGTCGTACTGGATCCAG+GGG + chr2.4:16352872-16352891 MS.gene69814:CDS 55.0%
CTTCTCTCTCAGACTCGAGG+AGG - chr2.4:16352994-16353013 None:intergenic 55.0%
GTGAAGGGACCAGTTAGGGA+GGG + chr2.4:16352956-16352975 MS.gene69814:CDS 55.0%
TCTCAGACTCGAGGAGGGTA+AGG - chr2.4:16352988-16353007 None:intergenic 55.0%
TGTGAAGGGACCAGTTAGGG+AGG + chr2.4:16352955-16352974 MS.gene69814:CDS 55.0%
! AACCTGAGTGACTTGTCCCC+TGG - chr2.4:16352891-16352910 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 16352833 16353030 16352833 ID=MS.gene69814
chr2.4 mRNA 16352833 16353030 16352833 ID=MS.gene69814.t1;Parent=MS.gene69814
chr2.4 exon 16352833 16353030 16352833 ID=MS.gene69814.t1.exon1;Parent=MS.gene69814.t1
chr2.4 CDS 16352833 16353030 16352833 ID=cds.MS.gene69814.t1;Parent=MS.gene69814.t1
Gene Sequence

>MS.gene69814

ATGGAATCACAGATTAAGCATGCTGTTGTTGTGAAAGTTATGGGTCGTACTGGATCCAGGGGACAAGTCACTCAGGTTAGAGTGAAGTTTTTGGATGATCAGAATCGTCACATCATGAGGAATGTGAAGGGACCAGTTAGGGAGGGAGACATCCTTACCCTCCTCGAGTCTGAGAGAGAAGCAAGAAGACTCCGATAG

Protein sequence

>MS.gene69814.t1

MESQIKHAVVVKVMGRTGSRGQVTQVRVKFLDDQNRHIMRNVKGPVREGDILTLLESEREARRLR