AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009036

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009036 MtrunA17_Chr2g0289081 79.000 100 20 1 1 99 21 120 4.71e-49 154
MsaG009036 MtrunA17_Chr7g0258861 35.652 115 66 3 43 150 10 123 3.20e-14 68.2
MsaG009036 MtrunA17_Chr5g0448761 36.000 125 69 3 37 150 53 177 2.89e-12 63.2
MsaG009036 MtrunA17_Chr1g0198761 35.256 156 79 8 15 150 17 170 3.80e-12 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009036 AT4G38180.1 33.577 137 80 3 24 150 54 189 7.15e-11 59.7

Find 25 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACTCCAAAACCTTCTTTCT+TGG 0.194532 2:-52183442 None:intergenic
TATTTGTCCTATTGTTGATA+TGG 0.229024 2:+52183374 MsaT009036.1:CDS
AAGCAGGGAAGAGAAGTAAA+TGG 0.304863 2:+52183607 MsaT009036.1:CDS
AGCAGATTGGCCACACTCTT+AGG 0.344272 2:-52183675 None:intergenic
TTTGCCAAGAAAGAAGGTTT+TGG 0.354079 2:+52183438 MsaT009036.1:CDS
TCAAATTCCATATCAACAAT+AGG 0.427064 2:-52183381 None:intergenic
GAAGGTACACATATAGTAAA+GGG 0.439216 2:+52183513 MsaT009036.1:CDS
TCACTTACTGTTTCAAAAGC+AGG 0.452498 2:+52183591 MsaT009036.1:CDS
ACATCGTTTGCCAAGAAAGA+AGG 0.462978 2:+52183432 MsaT009036.1:CDS
ATAAACAATGTTCACAATCA+TGG 0.474196 2:+52183642 MsaT009036.1:CDS
AATATTAGCTTCAGGTGACT+TGG 0.474696 2:-52183355 None:intergenic
ATAGGACAAATATTAGCTTC+AGG 0.478911 2:-52183363 None:intergenic
AGCAGGGAAGAGAAGTAAAT+GGG 0.489503 2:+52183608 MsaT009036.1:CDS
TGAAGGTACACATATAGTAA+AGG 0.494494 2:+52183512 MsaT009036.1:CDS
GTAAAGGGTGAAAATGAAGA+AGG 0.507431 2:+52183528 MsaT009036.1:CDS
CTAATTATGAGAAAGCAGAT+TGG 0.522880 2:-52183688 None:intergenic
TGCTTTACAATCAGTTCTTG+AGG 0.537334 2:-52183568 None:intergenic
CACTTACTGTTTCAAAAGCA+GGG 0.542698 2:+52183592 MsaT009036.1:CDS
GTACATGGATAATGAGTATG+TGG 0.550566 2:+52183251 None:intergenic
TAAAGGGTGAAAATGAAGAA+GGG 0.554329 2:+52183529 MsaT009036.1:CDS
CAATGTTCACAATCATGGAA+TGG 0.570975 2:+52183647 MsaT009036.1:CDS
ACACATCATCAACTATCTCA+TGG 0.582009 2:-52183302 None:intergenic
TATGGAATTTGACTCCATTG+TGG 0.618496 2:+52183392 MsaT009036.1:CDS
ATGCTTGTATGCGCTAATGA+AGG 0.648792 2:+52183495 MsaT009036.1:CDS
AATGGTTAGTCCTAAGAGTG+TGG 0.676645 2:+52183665 MsaT009036.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 52183255 52183710 52183255 ID=MsaG009036
Chr2 mRNA 52183255 52183710 52183255 ID=MsaT009036.1;Parent=MsaG009036
Chr2 exon 52183255 52183710 52183255 ID=MsaT009036.1.exon1;Parent=MsaT009036.1
Chr2 CDS 52183255 52183710 52183255 ID=cds.MsaT009036.1;Parent=MsaT009036.1
Gene Sequence

>MsaT009036.1

ATGGATAATGAGTATGTGGAAAATTCTACTGTTGAGTGTTTAGAAGACCATGAGATAGTTGATGATGTGTCTAATGATTTAGAACCAAATTTAGAAAATTCCAAGTCACCTGAAGCTAATATTTGTCCTATTGTTGATATGGAATTTGACTCCATTGTGGATGTAAAAGAATTCTACACATCGTTTGCCAAGAAAGAAGGTTTTGGAGTTCGTGTTCGGTCTACTAAGCAAATTTTTTGCATGCTTGTATGCGCTAATGAAGGTACACATATAGTAAAGGGTGAAAATGAAGAAGGGAAGAGAAAGAGTTCAACCTCAAGAACTGATTGTAAAGCATCACTTACTGTTTCAAAAGCAGGGAAGAGAAGTAAATGGGTTATAAAAAGCATAAACAATGTTCACAATCATGGAATGGTTAGTCCTAAGAGTGTGGCCAATCTGCTTTCTCATAATTAG
Protein sequence

>MsaT009036.1

MDNEYVENSTVECLEDHEIVDDVSNDLEPNLENSKSPEANICPIVDMEFDSIVDVKEFYTSFAKKEGFGVRVRSTKQIFCMLVCANEGTHIVKGENEEGKRKSSTSRTDCKASLTVSKAGKRSKWVIKSINNVHNHGMVSPKSVANLLSHN*