AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG012267

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012267 MtrunA17_Chr3g0079131 90.545 275 21 2 1 270 1 275 4.33e-177 488
MsaG012267 MtrunA17_Chr3g0079061 62.182 275 99 2 1 270 1 275 1.51e-113 327
MsaG012267 MtrunA17_Chr3g0079091 62.712 177 61 2 1 172 1 177 3.12e-63 196
MsaG012267 MtrunA17_Chr4g0018761 29.104 268 151 7 3 264 4 238 1.52e-25 101
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012267 AT1G02030.1 26.667 270 147 9 5 263 4 233 1.01e-12 67.0
MsaG012267 AT3G60580.1 27.240 279 142 11 7 261 5 246 2.64e-11 63.2

Find 25 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGAAGATTATGCATAGGTTT+TGG 0.234409 3:+21726771 None:intergenic
CGGTCGTAGACAATTTAATT+TGG 0.272723 3:-21726649 MsaT012267.1:CDS
AACAATATATCTGAAGAAAT+TGG 0.302487 3:-21726324 MsaT012267.1:CDS
TGAGAATACACAAGTTAAAT+TGG 0.302912 3:-21726550 MsaT012267.1:CDS
ATACTATAGTGAGAAGAAAA+AGG 0.312924 3:-21726448 MsaT012267.1:CDS
TAAATTGGTGTATAGTGATT+TGG 0.323391 3:-21726535 MsaT012267.1:CDS
TCAGGTGCTTGGTTGTTGAT+TGG 0.373001 3:+21726861 None:intergenic
TCTGAAGAAATTGGTATAAG+TGG 0.418644 3:-21726315 MsaT012267.1:CDS
CAACTGAGTGTTCAGGTGCT+TGG 0.424891 3:+21726850 None:intergenic
CTATTATTTGTGTGAATGAA+TGG 0.435873 3:-21726488 MsaT012267.1:CDS
GTTGACTCAACTGAGTGTTC+AGG 0.442669 3:+21726843 None:intergenic
AATAGAGAGAGTTTGATGTT+TGG 0.448411 3:+21726821 None:intergenic
TATTCTTACTAAAGTTTACA+AGG 0.462564 3:+21726721 None:intergenic
TCACAAGTGCACATATTGCT+TGG 0.480968 3:-21726262 MsaT012267.1:CDS
CAATGCTTTCCCATTAGAAA+AGG 0.484168 3:+21726935 None:intergenic
TACAGAAGCTGCTGAAACAA+TGG 0.521106 3:-21726511 MsaT012267.1:CDS
TGTACTTGAGGAACACAAAA+CGG 0.523616 3:-21726220 MsaT012267.1:CDS
TGAATCTGATCATGTACTTG+AGG 0.537940 3:-21726232 MsaT012267.1:CDS
ATAATCTTCGATCTTTGAAG+AGG 0.557615 3:-21726758 MsaT012267.1:CDS
AGAAATTGGTATAAGTGGAA+AGG 0.574832 3:-21726310 MsaT012267.1:CDS
AAAGATCGAAGATTATGCAT+AGG 0.576327 3:+21726765 None:intergenic
TGTAGCTGAAGAAAATGAAG+AGG 0.590626 3:-21726604 MsaT012267.1:CDS
ATTCTTACTAAAGTTTACAA+GGG 0.609953 3:+21726722 None:intergenic
TCTAATGGGAAAGCATTGGG+AGG 0.669450 3:-21726930 MsaT012267.1:CDS
GAATGAATGGAAACAAGTTG+AGG 0.698163 3:-21726475 MsaT012267.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 21726185 21726997 21726185 ID=MsaG012267
Chr3 mRNA 21726185 21726997 21726185 ID=MsaT012267.1;Parent=MsaG012267
Chr3 exon 21726185 21726997 21726185 ID=MsaT012267.1.exon1;Parent=MsaT012267.1
Chr3 CDS 21726185 21726997 21726185 ID=cds.MsaT012267.1;Parent=MsaT012267.1
Gene Sequence

>MsaT012267.1

ATGGAGAACAATAGAAGAGAATGTCACATTTGTAACAAGTCCTTTTCTAATGGGAAAGCATTGGGAGGCCACATGAAAACTCACTTAGCTAAACTACCAATCCCTCTAAAATCTCCAATCAACAACCAAGCACCTGAACACTCAGTTGAGTCAACCAAACATCAAACTCTCTCTATTTCTACATCTTCCTCATCAATTTCCAATCCAAAACCTATGCATAATCTTCGATCTTTGAAGAGGAACTTTTATCATACCCTTGTAAACTTTAGTAAGAATAGTGTGTTTGATTCTTTTCCAAAAAACCCAACTGGAAAAAGATCGAAACGCGGTCGTAGACAATTTAATTTGGCTGAAGAGAATACAATATTTAATGTAGCTGAAGAAAATGAAGAGGATACACAATTTAATGCAGTTGAAGAAATAAATGAGAATACACAAGTTAAATTGGTGTATAGTGATTTGGATACAGAAGCTGCTGAAACAATGGCTATTATTTGTGTGAATGAATGGAAACAAGTTGAGGAGAAATACTATAGTGAGAAGAAAAAGGTTAGTGAAAATGGCAACATCATGTTTGAATGCGATATTTGTCATGAAGTGTTTCAATATTGCAAAGATCTTGTTAGACATGAAGCAATCCATAAGAAAAATAACAATATATCTGAAGAAATTGGTATAAGTGGAAAGGAATATGATGTTGTAAATGAAGAAGTTCACAAGTGCACATATTGCTTGGAATTTTTTGAATCTGATCATGTACTTGAGGAACACAAAACGGTACACTTATCCAATTTTTCTGATTCTAACCCATAG
Protein sequence

>MsaT012267.1

MENNRRECHICNKSFSNGKALGGHMKTHLAKLPIPLKSPINNQAPEHSVESTKHQTLSISTSSSSISNPKPMHNLRSLKRNFYHTLVNFSKNSVFDSFPKNPTGKRSKRGRRQFNLAEENTIFNVAEENEEDTQFNAVEEINENTQVKLVYSDLDTEAAETMAIICVNEWKQVEEKYYSEKKKVSENGNIMFECDICHEVFQYCKDLVRHEAIHKKNNNISEEIGISGKEYDVVNEEVHKCTYCLEFFESDHVLEEHKTVHLSNFSDSNP*