AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038927

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038927 MtrunA17_Chr7g0252251 99.495 198 1 0 1 198 23 220 9.25e-148 409
MsaG038927 MtrunA17_Chr3g0090311 32.117 137 90 3 43 176 23 159 9.72e-14 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038927 AT2G38130.2 86.076 158 22 0 16 173 11 168 5.47e-103 295
MsaG038927 AT2G38130.1 86.076 158 22 0 16 173 11 168 5.47e-103 295
MsaG038927 AT5G13780.1 31.746 126 83 3 43 165 23 148 8.47e-11 58.9

Find 49 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGGCCGCCTTGGCTTTATT+AGG 0.293449 7:-82466710 MsaT038927.1:CDS
TGGCCGCCTTGGCTTTATTA+GGG 0.308261 7:-82466709 MsaT038927.1:CDS
GATTTCTGTTTCGTCTTTGT+TGG 0.315027 7:+82469740 None:intergenic
GGGCACGGTGGTTTGTAAAA+TGG 0.322086 7:-82469418 MsaT038927.1:CDS
TTTAGAGGTGCGTGCAAGTC+TGG 0.346963 7:+82466618 None:intergenic
GGCACGGTGGTTTGTAAAAT+GGG 0.366067 7:-82469417 MsaT038927.1:CDS
GAAGCAGAAGTCACAAATAA+AGG 0.367029 7:-82466747 MsaT038927.1:CDS
CTTGCTCTGTATGGCCGCCT+TGG 0.385195 7:-82466720 MsaT038927.1:CDS
TATTTATCCGGTGAGTTTAG+AGG 0.389776 7:+82466603 None:intergenic
ATCGCTACTTCGTCTATCTA+TGG 0.412371 7:-82469596 MsaT038927.1:CDS
ATTTCTGTTTCGTCTTTGTT+GGG 0.419367 7:+82469741 None:intergenic
CTAAACTCACCGGATAAATA+CGG 0.431673 7:-82466600 MsaT038927.1:CDS
CCAATGCCTCTTCCTCTGTA+GGG 0.454470 7:+82469342 None:intergenic
CGCTGAGTTCTTCGTCGACA+AGG 0.454965 7:+82469640 None:intergenic
CAGCCACAGAACTTGTTACT+AGG 0.457121 7:-82468902 MsaT038927.1:CDS
CGATAGGTGAAGATGGAGTA+AGG 0.474230 7:+82469615 None:intergenic
ATGTGGCTCCCGTATTTATC+CGG 0.481987 7:+82466591 None:intergenic
AAAGGAGCACTTGCTCTGTA+TGG 0.485924 7:-82466729 MsaT038927.1:CDS
ATCAAAGTGATGATGGAATC+TGG 0.488662 7:-82468876 MsaT038927.1:CDS
CCCTACAGAGGAAGAGGCAT+TGG 0.495396 7:-82469342 MsaT038927.1:intron
TAGGTCTATCAAAGTGATGA+TGG 0.496415 7:-82468883 MsaT038927.1:CDS
GAAGTAGCGATAGGTGAAGA+TGG 0.509096 7:+82469608 None:intergenic
ACCAATGCCTCTTCCTCTGT+AGG 0.521245 7:+82469341 None:intergenic
AGCCACATGCATAGTGATCA+TGG 0.523763 7:-82466576 MsaT038927.1:CDS
ATCAAACCCTACAGAGGAAG+AGG 0.528144 7:-82469348 MsaT038927.1:CDS
TTTCATAAGGGTAAATGTGT+GGG 0.560965 7:-82469438 MsaT038927.1:CDS
CAAGGTTCATGATGAGAGGT+AGG 0.571066 7:+82469658 None:intergenic
TATACATTAACAGGTTACAT+TGG 0.574035 7:-82466769 MsaT038927.1:intron
CGCCATGATCACTATGCATG+TGG 0.578923 7:+82466574 None:intergenic
TAAACTCACCGGATAAATAC+GGG 0.579845 7:-82466599 MsaT038927.1:CDS
GTAGCTGATGTATTCAATCT+CGG 0.580445 7:+82469695 None:intergenic
TAAGGGTAAATGTGTGGGCA+CGG 0.602307 7:-82469433 MsaT038927.1:CDS
GCACGCACCTCTAAACTCAC+CGG 0.616932 7:-82466610 MsaT038927.1:CDS
GAGATTGAATACATCAGCTA+CGG 0.624186 7:-82469693 MsaT038927.1:CDS
GGTGCGTGCAAGTCTGGACG+AGG 0.630380 7:+82466624 None:intergenic
GAGGAAATAAAAGTTTAAGA+CGG 0.630576 7:+82466643 None:intergenic
GCTTAGCCCTAATAAAGCCA+AGG 0.631068 7:+82466703 None:intergenic
TAGATAGACGAAGTAGCGAT+AGG 0.633007 7:+82469599 None:intergenic
TCGACAAGGTTCATGATGAG+AGG 0.638163 7:+82469654 None:intergenic
CACGGTGGTTTGTAAAATGG+GGG 0.647644 7:-82469415 MsaT038927.1:CDS
GTTGTTATCAAACCCTACAG+AGG 0.653909 7:-82469354 MsaT038927.1:CDS
GCACGGTGGTTTGTAAAATG+GGG 0.655026 7:-82469416 MsaT038927.1:CDS
ATTGAATACATCAGCTACGG+CGG 0.665233 7:-82469690 MsaT038927.1:CDS
AGACCTAGTAACAAGTTCTG+TGG 0.674745 7:+82468899 None:intergenic
GGTACCAGAAAAGAAAGATG+AGG 0.680873 7:+82469573 None:intergenic
GGGTAAATGTGTGGGCACGG+TGG 0.700892 7:-82469430 MsaT038927.1:CDS
TTGGCTTTATTAGGGCTAAG+CGG 0.719008 7:-82466701 MsaT038927.1:CDS
GATGGAATCTGGTTGTGACG+AGG 0.743372 7:-82468865 MsaT038927.1:intron
TAGCCCTAATAAAGCCAAGG+CGG 0.755354 7:+82466706 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 82466554 82469772 82466554 ID=MsaG038927
Chr7 mRNA 82466554 82469772 82466554 ID=MsaT038927.1;Parent=MsaG038927
Chr7 exon 82466554 82466778 82466554 ID=MsaT038927.1.exon4;Parent=MsaT038927.1
Chr7 CDS 82466554 82466778 82466554 ID=cds.MsaT038927.1;Parent=MsaT038927.1
Chr7 exon 82468866 82468921 82468866 ID=MsaT038927.1.exon3;Parent=MsaT038927.1
Chr7 CDS 82468866 82468921 82468866 ID=cds.MsaT038927.1;Parent=MsaT038927.1
Chr7 exon 82469343 82469463 82469343 ID=MsaT038927.1.exon2;Parent=MsaT038927.1
Chr7 CDS 82469343 82469463 82469343 ID=cds.MsaT038927.1;Parent=MsaT038927.1
Chr7 exon 82469578 82469772 82469578 ID=MsaT038927.1.exon1;Parent=MsaT038927.1
Chr7 CDS 82469578 82469772 82469578 ID=cds.MsaT038927.1;Parent=MsaT038927.1
Gene Sequence

>MsaT038927.1

ATGGAAACTCCCAACAAAGACGAAACAGAAATCTCGAAAGTAGAATTCAATGATTCCGAGATTGAATACATCAGCTACGGCGGCGAACATCACCTACCTCTCATCATGAACCTTGTCGACGAAGAACTCAGCGAACCTTACTCCATCTTCACCTATCGCTACTTCGTCTATCTATGGCCTCATCTTTCTTTTCTGGCTTTTCATAAGGGTAAATGTGTGGGCACGGTGGTTTGTAAAATGGGGGAACATCGTAGCACTTTTAGAGGATACATTGCTATGCTTGTTGTTATCAAACCCTACAGAGGAAGAGGCATTGCCACAGAACTTGTTACTAGGTCTATCAAAGTGATGATGGAATCTGGTTGTGACGAGGTTACATTGGAAGCAGAAGTCACAAATAAAGGAGCACTTGCTCTGTATGGCCGCCTTGGCTTTATTAGGGCTAAGCGGCTTTTTCACTACTATTTGAATGGAGTCGATGCTTTCCGTCTTAAACTTTTATTTCCTCGTCCAGACTTGCACGCACCTCTAAACTCACCGGATAAATACGGGAGCCACATGCATAGTGATCATGGCGATTCACTTATTGAGCAATGA
Protein sequence

>MsaT038927.1

METPNKDETEISKVEFNDSEIEYISYGGEHHLPLIMNLVDEELSEPYSIFTYRYFVYLWPHLSFLAFHKGKCVGTVVCKMGEHRSTFRGYIAMLVVIKPYRGRGIATELVTRSIKVMMESGCDEVTLEAEVTNKGALALYGRLGFIRAKRLFHYYLNGVDAFRLKLLFPRPDLHAPLNSPDKYGSHMHSDHGDSLIEQ*