AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG034360

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034360 MtrunA17_Chr6g0485001 94.972 358 5 1 1 345 1 358 0.0 704
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034360 AT1G43860.1 61.725 371 115 7 1 345 1 370 2.57e-160 453
MsaG034360 AT1G43860.2 56.522 345 114 8 27 345 1 335 3.85e-129 373

Find 73 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCAATGGACACCGCTTTAT+AGG 0.200595 6:-111288287 None:intergenic
GCACGGATTCAGAAGTTCTT+TGG 0.262575 6:-111289707 None:intergenic
CACGGATTCAGAAGTTCTTT+GGG 0.284543 6:-111289706 None:intergenic
ACAGGCTCTGGAGTTGATTC+AGG 0.285367 6:+111288247 MsaT034360.1:intron
TCATTCCAGTATTTGCTTAG+AGG 0.304623 6:+111285625 MsaT034360.1:CDS
ATTGGAGCCTGGTCTGTATA+AGG 0.329038 6:+111289560 MsaT034360.1:CDS
TGCTTCTTGGAGGTGCTGTT+TGG 0.331667 6:-111288135 None:intergenic
CAATGCTGTCTAGTCAGTTC+AGG 0.331986 6:+111288004 MsaT034360.1:CDS
AGGTGTTCTTGCTAAGTCTA+AGG 0.333707 6:+111285574 MsaT034360.1:CDS
ACCCTAACACCGTTCTTTCA+TGG 0.342417 6:+111285400 MsaT034360.1:CDS
CGCCATGAAAGAACGGTGTT+AGG 0.353355 6:-111285402 None:intergenic
TCAATGGACACCGCTTTATA+GGG 0.368380 6:-111288286 None:intergenic
GGAGGAAGTACCTATCCTTT+TGG 0.369437 6:+111288329 MsaT034360.1:intron
CTCACTCTCTTTATGTGGAT+GGG 0.371029 6:+111289634 MsaT034360.1:CDS
TTTAAAGAAAGGGGAACTTC+AGG 0.373529 6:+111287960 MsaT034360.1:CDS
AGAAGAGTGCACAGCAGATA+TGG 0.383434 6:+111289929 MsaT034360.1:CDS
ACAAACCTCTAAGCAAATAC+TGG 0.388442 6:-111285630 None:intergenic
TACCACAATGTCTCGTTCAT+TGG 0.388509 6:+111285293 None:intergenic
TGAATCAAAATCTGATTTGA+AGG 0.396855 6:+111289959 MsaT034360.1:CDS
GCTCACTCTCTTTATGTGGA+TGG 0.397818 6:+111289633 MsaT034360.1:CDS
AAAGGGGAACTTCAGGTTGC+TGG 0.407398 6:+111287967 MsaT034360.1:CDS
ACCGTTCTTTCATGGCGTTC+CGG 0.423741 6:+111285408 MsaT034360.1:CDS
TGTTGTCCCTCAGTAGGCTT+AGG 0.430168 6:-111289774 None:intergenic
TTGAAGATGCTAAGTTGTAC+AGG 0.433138 6:+111289835 MsaT034360.1:CDS
TGTTCCTTCTTTAGAAATAA+CGG 0.438277 6:-111288376 None:intergenic
TCTTGCTCACTCTCTTTATG+TGG 0.440257 6:+111289629 MsaT034360.1:CDS
TCAATCATGCTGATAGTGTA+AGG 0.442974 6:-111288078 None:intergenic
AAGGATTTGAATGCGGCGTT+TGG 0.443098 6:+111285593 MsaT034360.1:CDS
CAAAAGCAAACAATTTCGTC+TGG 0.443371 6:+111289750 MsaT034360.1:CDS
GTTCTTTGGGGCAATGGTGC+AGG 0.443834 6:-111289693 None:intergenic
TCAGAAGTTCTTTGGGGCAA+TGG 0.449572 6:-111289699 None:intergenic
AGGACAAGATACCTGCTTCT+TGG 0.450486 6:-111288148 None:intergenic
GCAACCGTTATTTCTAAAGA+AGG 0.458640 6:+111288372 MsaT034360.1:CDS
GTGCACTCTTCTTCAGATAG+TGG 0.490526 6:-111289918 None:intergenic
TTTGGTTGTTGTCCCTCAGT+AGG 0.497330 6:-111289780 None:intergenic
AGTGTAAGGGCGCTTAGTCT+CGG 0.500797 6:-111288064 None:intergenic
TCACTCTCTTTATGTGGATG+GGG 0.502380 6:+111289635 MsaT034360.1:CDS
GCCATGAAAGAACGGTGTTA+GGG 0.509375 6:-111285401 None:intergenic
ACAAGATACCTGCTTCTTGG+AGG 0.519410 6:-111288145 None:intergenic
GTGTAAGGGCGCTTAGTCTC+GGG 0.522577 6:-111288063 None:intergenic
AAACAGCACCTCCAAGAAGC+AGG 0.539561 6:+111288137 MsaT034360.1:CDS
TGTTTGGATCAACAGCGAAA+TGG 0.541879 6:-111288119 None:intergenic
TGAAGTGTTGCAGTCACATA+CGG 0.542659 6:+111285532 MsaT034360.1:CDS
AAAAGTCTTGTGCATTACAA+TGG 0.555238 6:-111288037 None:intergenic
AATGCTGTCTAGTCAGTTCA+GGG 0.557997 6:+111288005 MsaT034360.1:CDS
GCTTGTGCCACTCACTCTTG+TGG 0.558268 6:-111289863 None:intergenic
CGTTCATTGGTTCAACCAGT+AGG 0.559659 6:+111285306 MsaT034360.1:CDS
GCATGATTGAACGCCTCATG+AGG 0.570502 6:+111288091 MsaT034360.1:CDS
GGAAAAGCTGAGCGAGTGGA+AGG 0.571341 6:+111288350 MsaT034360.1:CDS
TTTATCATTCAGCTCAAGCA+CGG 0.574553 6:-111289724 None:intergenic
TTTGTTATGAATAAGATGCA+TGG 0.575041 6:+111289594 MsaT034360.1:CDS
CACTCTTCTTCAGATAGTGG+AGG 0.576466 6:-111289915 None:intergenic
GCCGGAACGCCATGAAAGAA+CGG 0.596078 6:-111285409 None:intergenic
GTTTATACGAATGTTTCGAA+AGG 0.596420 6:+111285554 MsaT034360.1:CDS
TTCAGGTTGCTGGTAAAGAG+AGG 0.599142 6:+111287977 MsaT034360.1:CDS
CAATCATGCTGATAGTGTAA+GGG 0.615053 6:-111288077 None:intergenic
TGAAGATGCTAAGTTGTACA+GGG 0.615157 6:+111289836 MsaT034360.1:CDS
AGTCTTGTGCATTACAATGG+TGG 0.616545 6:-111288034 None:intergenic
CGAAATGGATATCCCTCATG+AGG 0.633330 6:-111288104 None:intergenic
TCAGGTTGCTGGTAAAGAGA+GGG 0.634218 6:+111287978 MsaT034360.1:CDS
ACGGATTCAGAAGTTCTTTG+GGG 0.636915 6:-111289705 None:intergenic
TGACAATCCTTATACAGACC+AGG 0.646899 6:-111289567 None:intergenic
GGGAACACCACAAGAGTGAG+TGG 0.646994 6:+111289856 MsaT034360.1:CDS
ACAATATGAAGCGTAAAACA+AGG 0.648014 6:+111289886 MsaT034360.1:CDS
TGTGGATGGGGATACTCATG+TGG 0.649096 6:+111289647 MsaT034360.1:CDS
ACTCTTCTTCAGATAGTGGA+GGG 0.651530 6:-111289914 None:intergenic
CATGATTGAACGCCTCATGA+GGG 0.655277 6:+111288092 MsaT034360.1:CDS
GTCTGGACCTAAGCCTACTG+AGG 0.658281 6:+111289767 MsaT034360.1:CDS
AGAAGCACTACCCTATAAAG+CGG 0.681009 6:+111288276 MsaT034360.1:CDS
TCTGGACCTAAGCCTACTGA+GGG 0.681737 6:+111289768 MsaT034360.1:CDS
TAAGTCTAAGGATTTGAATG+CGG 0.687944 6:+111285586 MsaT034360.1:CDS
GTTGTTCGTCTCAAGAAACA+CGG 0.697669 6:+111285354 MsaT034360.1:CDS
TGTGGATTACAATGATCACG+AGG 0.775410 6:+111289665 MsaT034360.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 111285300 111289995 111285300 ID=MsaG034360
Chr6 mRNA 111285300 111289995 111285300 ID=MsaT034360.1;Parent=MsaG034360
Chr6 exon 111285300 111285433 111285300 ID=MsaT034360.1.exon1;Parent=MsaT034360.1
Chr6 CDS 111285300 111285433 111285300 ID=cds.MsaT034360.1;Parent=MsaT034360.1
Chr6 exon 111285517 111285646 111285517 ID=MsaT034360.1.exon2;Parent=MsaT034360.1
Chr6 CDS 111285517 111285646 111285517 ID=cds.MsaT034360.1;Parent=MsaT034360.1
Chr6 exon 111287958 111288158 111287958 ID=MsaT034360.1.exon3;Parent=MsaT034360.1
Chr6 CDS 111287958 111288158 111287958 ID=cds.MsaT034360.1;Parent=MsaT034360.1
Chr6 exon 111288251 111288299 111288251 ID=MsaT034360.1.exon4;Parent=MsaT034360.1
Chr6 CDS 111288251 111288299 111288251 ID=cds.MsaT034360.1;Parent=MsaT034360.1
Chr6 exon 111288337 111288416 111288337 ID=MsaT034360.1.exon5;Parent=MsaT034360.1
Chr6 CDS 111288337 111288416 111288337 ID=cds.MsaT034360.1;Parent=MsaT034360.1
Chr6 exon 111289552 111289995 111289552 ID=MsaT034360.1.exon6;Parent=MsaT034360.1
Chr6 CDS 111289552 111289995 111289552 ID=cds.MsaT034360.1;Parent=MsaT034360.1
Gene Sequence

>MsaT034360.1

ATGTCTCGTTCATTGGTTCAACCAGTAGGTCAAAAGCGATTAACAAACGTAGCAGTTGTTCGTCTCAAGAAACACGGCATGCGTTTCGAAATCGCTTGTTACCCTAACACCGTTCTTTCATGGCGTTCCGGCGTTGAAAAGGATATTGATGAAGTGTTGCAGTCACATACGGTTTATACGAATGTTTCGAAAGGTGTTCTTGCTAAGTCTAAGGATTTGAATGCGGCGTTTGGTACTGATGATCATTCCAGTATTTGCTTAGAGATTTTAAAGAAAGGGGAACTTCAGGTTGCTGGTAAAGAGAGGGAGTCAATGCTGTCTAGTCAGTTCAGGGACATAGCCACCATTGTAATGCACAAGACTTTTAATCCCGAGACTAAGCGCCCTTACACTATCAGCATGATTGAACGCCTCATGAGGGATATCCATTTCGCTGTTGATCCAAACAGCACCTCCAAGAAGCAGGCTCTGGAGTTGATTCAGGAGCTTCAGAAGCACTACCCTATAAAGCGGTTACCTATCCTTTTGGAAAAGCTGAGCGAGTGGAAGGCAACCGTTATTTCTAAAGAAGGAACAGCTGCTCAGCTATCTGTTGTTTTTGAATTGGAGCCTGGTCTGTATAAGGATTGTCACGACTTTGTTATGAATAAGATGCATGGAAGATTTGAAGTTCTTGCTCACTCTCTTTATGTGGATGGGGATACTCATGTGGATTACAATGATCACGAGGACACGCCTGCACCATTGCCCCAAAGAACTTCTGAATCCGTGCTTGAGCTGAATGATAAACTTCAAAAGCAAACAATTTCGTCTGGACCTAAGCCTACTGAGGGACAACAACCAAAGCAAAACAAGTGCAACACATGTGATGCTTGTTTTGAAGATGCTAAGTTGTACAGGGAACACCACAAGAGTGAGTGGCACAAGCACAATATGAAGCGTAAAACAAGGCAACTCCCTCCACTATCTGAAGAAGAGTGCACAGCAGATATGGAATTGTTTGAATCAAAATCTGATTTGAAGGATTATTCATTTTGA
Protein sequence

>MsaT034360.1

MSRSLVQPVGQKRLTNVAVVRLKKHGMRFEIACYPNTVLSWRSGVEKDIDEVLQSHTVYTNVSKGVLAKSKDLNAAFGTDDHSSICLEILKKGELQVAGKERESMLSSQFRDIATIVMHKTFNPETKRPYTISMIERLMRDIHFAVDPNSTSKKQALELIQELQKHYPIKRLPILLEKLSEWKATVISKEGTAAQLSVVFELEPGLYKDCHDFVMNKMHGRFEVLAHSLYVDGDTHVDYNDHEDTPAPLPQRTSESVLELNDKLQKQTISSGPKPTEGQQPKQNKCNTCDACFEDAKLYREHHKSEWHKHNMKRKTRQLPPLSEEECTADMELFESKSDLKDYSF*