AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036860


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036860 MtrunA17_Chr7g0262351 40.171 117 65 3 1 117 27 138 2.75e-22 85.9
MsaG036860 MtrunA17_Chr8g0364781 40.517 116 65 3 1 115 17 129 2.00e-17 73.6
MsaG036860 MtrunA17_Chr7g0262671 40.506 79 36 3 4 80 17 86 6.03e-11 55.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036860 AT5G26594.1 39.623 106 60 3 7 112 29 130 3.11e-16 70.5
MsaG036860 AT3G04280.1 36.538 104 64 1 1 104 27 128 7.25e-14 64.7
MsaG036860 AT3G04280.2 36.538 104 64 1 1 104 27 128 7.25e-14 64.7
MsaG036860 AT3G04280.3 36.538 104 64 1 1 104 27 128 7.25e-14 64.7

Find 30 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCCGGTCATGGATGGGATTA+AGG 0.264379 7:-46162344 MsaT036860.1:intron
CAATTAAGTCTAGTCCTTCT+TGG 0.272460 7:+46162413 None:intergenic
TCTCATTCATAAAGATCTAT+TGG 0.335150 7:-46162473 MsaT036860.1:CDS
GTCCCCACCAGGTCGAAATA+TGG 0.345335 7:-46161771 MsaT036860.1:CDS
TTGAGCTGATTCTCATTGAT+AGG 0.384314 7:-46162372 MsaT036860.1:CDS
AGGACTAGACTTAATTGATT+GGG 0.396517 7:-46162407 MsaT036860.1:CDS
AACACACCAACAATCAAGTT+AGG 0.407049 7:+46161909 None:intergenic
TGAAGGTCTTGCGCACAATA+AGG 0.407767 7:-46161935 MsaT036860.1:CDS
AAGGACTAGACTTAATTGAT+TGG 0.427884 7:-46162408 MsaT036860.1:CDS
AGGCAAATGCCGGTCATGGA+TGG 0.473023 7:-46162352 MsaT036860.1:CDS
ACACTCTACTTCTGTCAGGC+GGG 0.488843 7:+46161881 None:intergenic
TAACTTGATTGTTGGTGTGT+TGG 0.493229 7:-46161907 MsaT036860.1:CDS
TTCCATATTTCGACCTGGTG+GGG 0.498527 7:+46161769 None:intergenic
TTTATGCATGAAGGCGATGA+AGG 0.498636 7:-46161952 MsaT036860.1:intron
ACCTTAATCCCATCCATGAC+CGG 0.504581 7:+46162343 None:intergenic
AGGTACCCTAACTTGATTGT+TGG 0.504642 7:-46161915 MsaT036860.1:CDS
CTTCACACTCTACTTCTGTC+AGG 0.521338 7:+46161877 None:intergenic
TGATAGGCAAATGCCGGTCA+TGG 0.527280 7:-46162356 MsaT036860.1:CDS
TTTCCATATTTCGACCTGGT+GGG 0.533290 7:+46161768 None:intergenic
AAAGATCTATTGGAAATACT+TGG 0.546811 7:-46162463 MsaT036860.1:CDS
CTGGATGATATCCATGATGA+AGG 0.551200 7:-46161837 MsaT036860.1:CDS
GGCAAATGCCGGTCATGGAT+GGG 0.556022 7:-46162351 MsaT036860.1:CDS
ACACACCAACAATCAAGTTA+GGG 0.561074 7:+46161910 None:intergenic
CACTCTACTTCTGTCAGGCG+GGG 0.573026 7:+46161882 None:intergenic
CACACTCTACTTCTGTCAGG+CGG 0.575511 7:+46161880 None:intergenic
TTGTTGAATCAGTCCCCACC+AGG 0.589026 7:-46161782 MsaT036860.1:CDS
TCTCATTGATAGGCAAATGC+CGG 0.596310 7:-46162362 MsaT036860.1:CDS
GGACTAGACTTAATTGATTG+GGG 0.603312 7:-46162406 MsaT036860.1:CDS
TTTAAGTTCATCAAGAGACA+AGG 0.625412 7:+46161809 None:intergenic
TTAAGTTCATCAAGAGACAA+GGG 0.640940 7:+46161810 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 46161725 46162518 46161725 ID=MsaG036860
Chr7 mRNA 46161725 46162518 46161725 ID=MsaT036860.1;Parent=MsaG036860
Chr7 exon 46161725 46161961 46161725 ID=MsaT036860.1.exon2;Parent=MsaT036860.1
Chr7 CDS 46161725 46161961 46161725 ID=cds.MsaT036860.1;Parent=MsaT036860.1
Chr7 exon 46162345 46162518 46162345 ID=MsaT036860.1.exon1;Parent=MsaT036860.1
Chr7 CDS 46162345 46162518 46162345 ID=cds.MsaT036860.1;Parent=MsaT036860.1
Gene Sequence

>MsaT036860.1

ATGGATAATGACGATAATACACGTCTCATTCATAAAGATCTATTGGAAATACTTGGTGTAGAAGATCATACAGTGAAAAATGGCCAAGAAGGACTAGACTTAATTGATTGGGGTGCTAAACAATTTGAGCTGATTCTCATTGATAGGCAAATGCCGGTCATGGATGGGATTAAGGCGATGAAGGTCTTGCGCACAATAAGGTACCCTAACTTGATTGTTGGTGTGTTGGAGCCCCGCCTGACAGAAGTAGAGTGTGAAGAATTTTTTAGGGCGGGGCTGGATGATATCCATGATGAAGGAAAACCCTTGTCTCTTGATGAACTTAAAGTCATTGTTGAATCAGTCCCCACCAGGTCGAAATATGGAAAAATCACATTAGGATATTATGTTATTTTTCTATATACTAAATAG

Protein sequence

>MsaT036860.1

MDNDDNTRLIHKDLLEILGVEDHTVKNGQEGLDLIDWGAKQFELILIDRQMPVMDGIKAMKVLRTIRYPNLIVGVLEPRLTEVECEEFFRAGLDDIHDEGKPLSLDELKVIVESVPTRSKYGKITLGYYVIFLYTK*