AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1407600


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1407600 MtrunA17_Chr8g0391661 87.179 78 4 2 1 78 30 101 5.93e-31 104
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1407600 AT1G67920.1 48.611 72 29 3 7 77 3 67 6.18e-12 55.5

Find 11 sgRNAs with CRISPR-Local

Find 11 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCAATCTCGCTCACCTCT+TGG 0.342631 tig0023317:+44081 Msa1407600:CDS
GAAAATCAAACAACCATCAT+TGG 0.418333 tig0023317:+44017 Msa1407600:CDS
ATCTCGCTCACCTCTTGGAT+TGG 0.451818 tig0023317:+44086 Msa1407600:CDS
TATAACTCTGCCTCCAATGA+TGG 0.477595 tig0023317:-44030 None:intergenic
TATCCAAGTGATCAAAATCA+AGG 0.494098 tig0023317:+43984 Msa1407600:CDS
TGGAGGCAGAGTTATATATG+AGG 0.540379 tig0023317:+44037 Msa1407600:CDS
GATGAAGATGTATATGCAGC+AGG 0.544411 tig0023317:+43949 Msa1407600:CDS
AATCAAACAACCATCATTGG+AGG 0.585594 tig0023317:+44020 Msa1407600:CDS
CACCTCTTGGATTGGCAGAG+AGG 0.590023 tig0023317:+44094 Msa1407600:CDS
ATATCTAAGAATGACTGAGA+AGG 0.610031 tig0023317:-44122 None:intergenic
GTCCTCTCTGCCAATCCAAG+AGG 0.663930 tig0023317:-44096 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TATCCAAGTGATCAAAATCA+AGG + tig0023317:43984-44003 Msa1407600:CDS 30.0%
GAAAATCAAACAACCATCAT+TGG + tig0023317:44017-44036 Msa1407600:CDS 30.0%
!! CTTCCTTGATTTTGATCACT+TGG - tig0023317:43990-44009 None:intergenic 35.0%
AATCAAACAACCATCATTGG+AGG + tig0023317:44020-44039 Msa1407600:CDS 35.0%
GATGAAGATGTATATGCAGC+AGG + tig0023317:43949-43968 Msa1407600:CDS 40.0%
TATAACTCTGCCTCCAATGA+TGG - tig0023317:44033-44052 None:intergenic 40.0%
TGGAGGCAGAGTTATATATG+AGG + tig0023317:44037-44056 Msa1407600:CDS 40.0%
CTTCAATCTCGCTCACCTCT+TGG + tig0023317:44081-44100 Msa1407600:CDS 50.0%
ATCTCGCTCACCTCTTGGAT+TGG + tig0023317:44086-44105 Msa1407600:CDS 50.0%
!! CACCTCTTGGATTGGCAGAG+AGG + tig0023317:44094-44113 Msa1407600:CDS 55.0%
GTCCTCTCTGCCAATCCAAG+AGG - tig0023317:44099-44118 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
tig0023317 gene 43904 44140 43904 ID=Msa1407600;Name=Msa1407600
tig0023317 mRNA 43904 44140 43904 ID=Msa1407600-mRNA-1;Parent=Msa1407600;Name=Msa1407600-mRNA-1;_AED=0.01;_eAED=0.06;_QI=0|-1|0|1|-1|1|1|0|78
tig0023317 exon 43904 44140 43904 ID=Msa1407600-mRNA-1:exon:25156;Parent=Msa1407600-mRNA-1
tig0023317 CDS 43904 44140 43904 ID=Msa1407600-mRNA-1:cds;Parent=Msa1407600-mRNA-1
Gene Sequence

>Msa1407600

ATGGAATTCAAGAGCAACAACAAGAGTGATGAGATGAAGAGAAGTGATGAAGATGTATATGCAGCAGGTCTTGCTGTTCATATCCAAGTGATCAAAATCAAGGAAGAAATTGAGAAAATCAAACAACCATCATTGGAGGCAGAGTTATATATGAGGAGACTCAAAGATGTGAAGCGTCTTCAATCTCGCTCACCTCTTGGATTGGCAGAGAGGACTATCCTTCTCAGTCATTCTTAG

Protein sequence

>Msa1407600

MEFKSNNKSDEMKRSDEDVYAAGLAVHIQVIKIKEEIEKIKQPSLEAELYMRRLKDVKRLQSRSPLGLAERTILLSHS*