AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG029687

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 52 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCCAATTTGTAGACAATTT+AGG 0.241276 5:+80172753 MsaT029687.1:intron
ATCTCTAAACCTTCTTGATT+TGG 0.251971 5:-80172519 None:intergenic
AGAGAGGTTGACAAGGATTC+AGG 0.263397 5:+80172287 MsaT029687.1:CDS
ATCTCCACACCTTCTTGATT+TGG 0.264977 5:-80172423 None:intergenic
ACATCTCCACCTTCTTGATT+TGG 0.311346 5:-80172456 None:intergenic
GCAATCTCTACACCTTCTAT+TGG 0.363681 5:-80172393 None:intergenic
CTTCCGTGTGTCTTGGAATG+AGG 0.400503 5:-80172266 None:intergenic
AACCTTCTTGATTTGGACCT+TGG 0.407045 5:-80172512 None:intergenic
TGAGAAACTGCGGTAGAGAT+TGG 0.424886 5:+80172783 MsaT029687.1:CDS
AACCTCTCTTCCGTGTGTCT+TGG 0.429873 5:-80172273 None:intergenic
CAACTAGAAGATGGTCTTCA+AGG 0.438972 5:+80172369 MsaT029687.1:CDS
GGTCTTCAAGGTCCAATAGA+AGG 0.452409 5:+80172381 MsaT029687.1:CDS
ACATTGTTCCTTCTGTGAGC+AGG 0.458464 5:-80172318 None:intergenic
AACCCTCCTGCTATCAAGAA+AGG 0.466778 5:+80172582 MsaT029687.1:CDS
CCAACTCATTGCCGTCGTCT+TGG 0.469115 5:-80172902 None:intergenic
CAACGCCCTTTCTTGATAGC+AGG 0.475100 5:-80172588 None:intergenic
CTATGATTAAAGATCTGATC+AGG 0.491182 5:-80172842 None:intergenic
CTCGAGACTATGTGCGTACA+AGG 0.494533 5:+80172816 MsaT029687.1:CDS
CGCCCTTTCTTGATAGCAGG+AGG 0.502999 5:-80172585 None:intergenic
TTCCGTGTGTCTTGGAATGA+GGG 0.508023 5:-80172265 None:intergenic
CCTCATCTTCCCCACTCCAA+TGG 0.522802 5:-80172221 None:intergenic
CTGCTATCAAGAAAGGGCGT+TGG 0.529181 5:+80172589 MsaT029687.1:CDS
GAGAGGTTGACAAGGATTCA+GGG 0.530145 5:+80172288 MsaT029687.1:CDS
ACCCTCCTGCTATCAAGAAA+GGG 0.534887 5:+80172583 MsaT029687.1:CDS
ATTTGTAGACAATTTAGGAA+TGG 0.542165 5:+80172758 MsaT029687.1:intron
AGATTATCTTGAAGAGCCAC+TGG 0.543807 5:-80172552 None:intergenic
TCACAGAAGGAACAATGTCT+TGG 0.544326 5:+80172323 MsaT029687.1:CDS
CATTGTTCCTTCTGTGAGCA+GGG 0.545498 5:-80172317 None:intergenic
CAATGGCAGACAACAACCAT+TGG 0.551240 5:+80172205 None:intergenic
GACTCTTCCCTGCTCACAGA+AGG 0.566168 5:+80172310 MsaT029687.1:CDS
CCATTGGAGTGGGGAAGATG+AGG 0.572664 5:+80172221 MsaT029687.1:CDS
GCATTACAACAACTAGAAGA+TGG 0.572675 5:+80172360 MsaT029687.1:CDS
CTCCAAGGTCCAAATCAAGA+AGG 0.574946 5:+80172510 MsaT029687.1:CDS
AGATCCAAATCAAGAAGGTG+TGG 0.582598 5:+80172419 MsaT029687.1:CDS
AGAAGGTGGAGATGTGGTAG+TGG 0.584716 5:+80172464 MsaT029687.1:CDS
CAAATTGATGATCATCTCCA+AGG 0.589095 5:+80172495 MsaT029687.1:CDS
CAGACAACAACCATTGGAGT+GGG 0.596943 5:+80172211 MsaT029687.1:CDS
GCTCAAGATCCAAATCAAGA+AGG 0.605441 5:+80172414 MsaT029687.1:CDS
TTCCAAGACACACGGAAGAG+AGG 0.614632 5:+80172271 MsaT029687.1:CDS
AAATCAAGAAGGTGGAGATG+TGG 0.615776 5:+80172458 MsaT029687.1:CDS
GCCCTTTCTTGATAGCAGGA+GGG 0.620043 5:-80172584 None:intergenic
CAAGGTCCAAATCAAGAAGG+TGG 0.621774 5:+80172450 MsaT029687.1:CDS
CGGTAGAGATTGGATAGCAG+TGG 0.625527 5:+80172793 MsaT029687.1:CDS
GAAGGTGTGGAGATTGCTCA+AGG 0.627930 5:+80172432 MsaT029687.1:CDS
GCAGACAACAACCATTGGAG+TGG 0.632161 5:+80172210 MsaT029687.1:CDS
ACACGGAAGAGAGGTTGACA+AGG 0.636930 5:+80172280 MsaT029687.1:CDS
GCTCAAGGTCCAAATCAAGA+AGG 0.640350 5:+80172447 MsaT029687.1:CDS
AGAGATAGCTCAAGTACCAG+TGG 0.651106 5:+80172536 MsaT029687.1:CDS
GACCCTCATTCCAAGACACA+CGG 0.655892 5:+80172263 MsaT029687.1:CDS
AGACAACAACCATTGGAGTG+GGG 0.685845 5:+80172212 MsaT029687.1:CDS
AGGAATGGAGTGAGAAACTG+CGG 0.689963 5:+80172773 MsaT029687.1:CDS
TGAAGACTATTCCAAGACGA+CGG 0.700910 5:+80172891 MsaT029687.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 80172207 80172919 80172207 ID=MsaG029687
Chr5 mRNA 80172207 80172919 80172207 ID=MsaT029687.1;Parent=MsaG029687
Chr5 exon 80172207 80172628 80172207 ID=MsaT029687.1.exon1;Parent=MsaT029687.1
Chr5 CDS 80172207 80172628 80172207 ID=cds.MsaT029687.1;Parent=MsaT029687.1
Chr5 exon 80172766 80172919 80172766 ID=MsaT029687.1.exon2;Parent=MsaT029687.1
Chr5 CDS 80172766 80172919 80172766 ID=cds.MsaT029687.1;Parent=MsaT029687.1
Gene Sequence

>MsaT029687.1

ATGGCAGACAACAACCATTGGAGTGGGGAAGATGAGGAATTTCTCAAATACGCTATGACCCTCATTCCAAGACACACGGAAGAGAGGTTGACAAGGATTCAGGGACTCTTCCCTGCTCACAGAAGGAACAATGTCTTGGTTGCACGTTTCACTGCATTACAACAACTAGAAGATGGTCTTCAAGGTCCAATAGAAGGTGTAGAGATTGCTCAAGATCCAAATCAAGAAGGTGTGGAGATTGCTCAAGGTCCAAATCAAGAAGGTGGAGATGTGGTAGTGGCTCTTCAACAAATTGATGATCATCTCCAAGGTCCAAATCAAGAAGGTTTAGAGATAGCTCAAGTACCAGTGGCTCTTCAAGATAATCTACAAGAAAACCCTCCTGCTATCAAGAAAGGGCGTTGGAGCGAAGATGAGAAGCAACAATTTAGGAATGGAGTGAGAAACTGCGGTAGAGATTGGATAGCAGTGGCTCGAGACTATGTGCGTACAAGGACACCTGATCAGATCTTTAATCATAGCAATAATGTTGAGCATAGAGATTTCATGAAGACTATTCCAAGACGACGGCAATGA
Protein sequence

>MsaT029687.1

MADNNHWSGEDEEFLKYAMTLIPRHTEERLTRIQGLFPAHRRNNVLVARFTALQQLEDGLQGPIEGVEIAQDPNQEGVEIAQGPNQEGGDVVVALQQIDDHLQGPNQEGLEIAQVPVALQDNLQENPPAIKKGRWSEDEKQQFRNGVRNCGRDWIAVARDYVRTRTPDQIFNHSNNVEHRDFMKTIPRRRQ*