AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0970120


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0970120 MtrunA17_Chr6g0448971 89.781 137 9 3 1 137 3 134 1.84e-84 243
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0970120 AT5G23440.1 47.619 147 55 5 11 139 40 182 6.93e-35 119
Msa0970120 AT5G08410.1 53.390 118 34 5 38 137 68 182 8.41e-32 112
Msa0970120 AT5G08410.2 53.390 118 34 5 38 137 88 202 9.47e-32 112

Find 24 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAAACAGAACGTGACTTTC+TGG 0.206313 6_4:+1604869 Msa0970120:CDS
CTCTGCTAATCTTCCTTATA+AGG 0.228848 6_4:+1604909 Msa0970120:CDS
GCAACAAATTCAACCTTATA+AGG 0.312698 6_4:-1604922 None:intergenic
CCAAGATTGGAGCGCGTGTT+AGG 0.324986 6_4:+1604773 Msa0970120:CDS
AAGTCACGTTCTGTTTGATT+TGG 0.360970 6_4:-1604864 None:intergenic
CCTAACACGCGCTCCAATCT+TGG 0.382971 6_4:-1604773 None:intergenic
GAGATCAACTTCAGGAACTT+TGG 0.391850 6_4:-1604827 None:intergenic
TGGAGCGCGTGTTAGGGTTA+AGG 0.393600 6_4:+1604780 Msa0970120:CDS
CACTTCTTCAATTGCAACAT+TGG 0.395451 6_4:+1604624 Msa0970120:CDS
AGATCAACTTCAGGAACTTT+GGG 0.402665 6_4:-1604826 None:intergenic
TCATCATCAACAGCCAAGAT+TGG 0.450662 6_4:+1604760 Msa0970120:CDS
CTACCAGTGAGATCAACTTC+AGG 0.479502 6_4:-1604835 None:intergenic
CAAGATTGGAGCGCGTGTTA+GGG 0.489458 6_4:+1604774 Msa0970120:CDS
TTTGTTGCTGATGATATTCA+AGG 0.490454 6_4:+1604937 Msa0970120:CDS
GGAACGTGATAGACTTTGAG+AGG 0.536757 6_4:-1604805 None:intergenic
GTTCCTGAAGTTGATCTCAC+TGG 0.542999 6_4:+1604832 Msa0970120:CDS
ACTCAGATAAGATGTGATGT+TGG 0.560643 6_4:+1604718 Msa0970120:CDS
GTTGATCTCACTGGTAGAGA+AGG 0.573181 6_4:+1604841 Msa0970120:CDS
AGATGAGCAACAAACTTGAG+AGG 0.590824 6_4:-1604970 None:intergenic
CAATGTTGCAATTGAAGAAG+TGG 0.598656 6_4:-1604623 None:intergenic
TTCTTCGTATTCATAAACAA+CGG 0.618230 6_4:-1604658 None:intergenic
GTATTCATAAACAACGGCAA+CGG 0.669143 6_4:-1604652 None:intergenic
GATGATATTCAAGGTCCTCG+TGG 0.683280 6_4:+1604946 Msa0970120:CDS
ACAAACTTGAGAGGACCACG+AGG 0.762532 6_4:-1604961 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTCTTCGTATTCATAAACAA+CGG - chr6_4:1604661-1604680 None:intergenic 25.0%
GCAACAAATTCAACCTTATA+AGG - chr6_4:1604925-1604944 None:intergenic 30.0%
TTTGTTGCTGATGATATTCA+AGG + chr6_4:1604937-1604956 Msa0970120:CDS 30.0%
CAATGTTGCAATTGAAGAAG+TGG - chr6_4:1604626-1604645 None:intergenic 35.0%
CACTTCTTCAATTGCAACAT+TGG + chr6_4:1604624-1604643 Msa0970120:CDS 35.0%
GTATTCATAAACAACGGCAA+CGG - chr6_4:1604655-1604674 None:intergenic 35.0%
ACTCAGATAAGATGTGATGT+TGG + chr6_4:1604718-1604737 Msa0970120:CDS 35.0%
AGATCAACTTCAGGAACTTT+GGG - chr6_4:1604829-1604848 None:intergenic 35.0%
AAGTCACGTTCTGTTTGATT+TGG - chr6_4:1604867-1604886 None:intergenic 35.0%
CTCTGCTAATCTTCCTTATA+AGG + chr6_4:1604909-1604928 Msa0970120:CDS 35.0%
TCATCATCAACAGCCAAGAT+TGG + chr6_4:1604760-1604779 Msa0970120:CDS 40.0%
GAGATCAACTTCAGGAACTT+TGG - chr6_4:1604830-1604849 None:intergenic 40.0%
TCAAACAGAACGTGACTTTC+TGG + chr6_4:1604869-1604888 Msa0970120:CDS 40.0%
AGATGAGCAACAAACTTGAG+AGG - chr6_4:1604973-1604992 None:intergenic 40.0%
GGAACGTGATAGACTTTGAG+AGG - chr6_4:1604808-1604827 None:intergenic 45.0%
! GTTCCTGAAGTTGATCTCAC+TGG + chr6_4:1604832-1604851 Msa0970120:CDS 45.0%
CTACCAGTGAGATCAACTTC+AGG - chr6_4:1604838-1604857 None:intergenic 45.0%
GTTGATCTCACTGGTAGAGA+AGG + chr6_4:1604841-1604860 Msa0970120:CDS 45.0%
GATGATATTCAAGGTCCTCG+TGG + chr6_4:1604946-1604965 Msa0970120:CDS 45.0%
CAAGATTGGAGCGCGTGTTA+GGG + chr6_4:1604774-1604793 Msa0970120:CDS 50.0%
ACAAACTTGAGAGGACCACG+AGG - chr6_4:1604964-1604983 None:intergenic 50.0%
CCTAACACGCGCTCCAATCT+TGG - chr6_4:1604776-1604795 None:intergenic 55.0%
CCAAGATTGGAGCGCGTGTT+AGG + chr6_4:1604773-1604792 Msa0970120:CDS 55.0%
TGGAGCGCGTGTTAGGGTTA+AGG + chr6_4:1604780-1604799 Msa0970120:CDS 55.0%
Chromosome Type Strat End Strand Name
chr6_4 gene 1604607 1605026 1604607 ID=Msa0970120;Name=Msa0970120
chr6_4 mRNA 1604607 1605026 1604607 ID=Msa0970120-mRNA-1;Parent=Msa0970120;Name=Msa0970120-mRNA-1;_AED=0.01;_eAED=0.04;_QI=0|-1|0|1|-1|1|1|0|139
chr6_4 exon 1604607 1605026 1604607 ID=Msa0970120-mRNA-1:exon:817;Parent=Msa0970120-mRNA-1
chr6_4 CDS 1604607 1605026 1604607 ID=Msa0970120-mRNA-1:cds;Parent=Msa0970120-mRNA-1
Gene Sequence

>Msa0970120

ATGAACATGACTAGCACCACTTCTTCAATTGCAACATTGGTGACTCCGTTGCCGTTGTTTATGAATACGAAGAAGAAGAAGATGATGATTCAGAGAAGCATAAGAATGACGACTCAGATAAGATGTGATGTTGGAGAAGAAGAACAAGATTCATCATCATCAACAGCCAAGATTGGAGCGCGTGTTAGGGTTAAGGTTCCTCTCAAAGTCTATCACGTTCCCAAAGTTCCTGAAGTTGATCTCACTGGTAGAGAAGGCCAAATCAAACAGAACGTGACTTTCTGGAAAGATAATAAGCGAATCTCTGCTAATCTTCCTTATAAGGTTGAATTTGTTGCTGATGATATTCAAGGTCCTCGTGGTCCTCTCAAGTTTGTTGCTCATCTCAAAGATGATGAATTCGAATTTCTCTCTCAGTAA

Protein sequence

>Msa0970120

MNMTSTTSSIATLVTPLPLFMNTKKKKMMIQRSIRMTTQIRCDVGEEEQDSSSSTAKIGARVRVKVPLKVYHVPKVPEVDLTGREGQIKQNVTFWKDNKRISANLPYKVEFVADDIQGPRGPLKFVAHLKDDEFEFLSQ*