AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG046247


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046247 MtrunA17_Chr4g0073171 93.962 265 16 0 1 265 1 265 0.0 516
MsaG046247 MtrunA17_Chr2g0300621 29.255 188 108 5 58 236 106 277 8.02e-13 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046247 AT4G28030.1 64.407 236 84 0 27 262 31 266 1.16e-112 325
MsaG046247 AT4G28030.2 60.593 236 82 1 27 262 31 255 2.20e-101 296
MsaG046247 AT2G06025.1 30.481 187 107 4 58 236 95 266 3.93e-16 76.6
MsaG046247 AT2G06025.6 30.481 187 107 4 58 236 95 266 3.93e-16 76.6
MsaG046247 AT2G06025.4 30.481 187 107 4 58 236 95 266 3.93e-16 76.6

Find 48 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCACTTAAGGAGCGTGTTTC+AGG 0.154494 8:+82387594 MsaT046247.1:CDS
CAAAGTCAGTTGCTCGTAAT+TGG 0.193463 8:+82388456 MsaT046247.1:CDS
CTTTCTACGATGATGAATTC+TGG 0.240043 8:+82387319 MsaT046247.1:CDS
TTCATGTACAATTTCTTTGC+TGG 0.253198 8:-82390341 None:intergenic
GTTAATGCAGAATTTGAAAA+TGG 0.275846 8:-82387195 None:intergenic
AGGATTGGATTGGAGTTCTA+AGG 0.319219 8:-82387233 None:intergenic
CGTAAGTGTCTGGACGAAAT+TGG 0.337880 8:-82387374 None:intergenic
GCTAGAGAGTTGCACAGAAA+TGG 0.349757 8:+82388407 MsaT046247.1:CDS
AAAGTCAGTTGCTCGTAATT+GGG 0.384466 8:+82388457 MsaT046247.1:CDS
AGTCTTCCTGATGAAATTGT+AGG 0.385815 8:+82387897 MsaT046247.1:CDS
TGATTTATGTTCTTCATGTA+AGG 0.404309 8:+82387692 MsaT046247.1:CDS
ACGTGAGTTTGAAGCACTTA+AGG 0.420143 8:+82387581 MsaT046247.1:CDS
AATGGAGAAGATGAATGAAT+TGG 0.432279 8:-82387177 None:intergenic
TTTCTACGATGATGAATTCT+GGG 0.435140 8:+82387320 MsaT046247.1:CDS
CTAGAGAGTTGCACAGAAAT+GGG 0.439454 8:+82388408 MsaT046247.1:CDS
ACTTGGACTCCGTAAGTGTC+TGG 0.451152 8:-82387384 None:intergenic
TTCATCCCTACAATTTCATC+AGG 0.451868 8:-82387903 None:intergenic
TTAGGATCATGTTAAGTACT+TGG 0.473581 8:+82387554 MsaT046247.1:intron
CAATTTCGTCCAGACACTTA+CGG 0.474222 8:+82387375 MsaT046247.1:CDS
AGAAACCTTGCCTGCCATGC+AGG 0.496588 8:-82390392 None:intergenic
GGAGAAGATGAATGAATTGG+AGG 0.499020 8:-82387174 None:intergenic
GGAGAAGACAGGGTTGTAGT+TGG 0.511921 8:+82387849 MsaT046247.1:CDS
CTTTGCTGGTTCATTGTCAA+CGG 0.514602 8:-82390327 None:intergenic
CACTTAAGGAGCGTGTTTCA+GGG 0.519287 8:+82387595 MsaT046247.1:CDS
ATTCTGCCAGTGGAGAAGAC+AGG 0.520790 8:+82387838 MsaT046247.1:CDS
CTAGTGGAGCTGATACTACA+AGG 0.523464 8:+82388360 MsaT046247.1:CDS
AGAAATTGTACATGAAGAGC+GGG 0.527874 8:+82390348 MsaT046247.1:CDS
GAGTGATGAACCTGCATGGC+AGG 0.529229 8:+82390382 MsaT046247.1:CDS
ATGAACCTGCATGGCAGGCA+AGG 0.531331 8:+82390387 MsaT046247.1:CDS
GTCTGGACGAAATTGGTTGA+AGG 0.533997 8:-82387367 None:intergenic
TACAACCCTGTCTTCTCCAC+TGG 0.534625 8:-82387844 None:intergenic
GCGAAGACTTCTGCTATGGA+TGG 0.537747 8:+82390424 MsaT046247.1:CDS
ATCCATAGCAGAAGTCTTCG+CGG 0.537820 8:-82390422 None:intergenic
AAGAAATTGTACATGAAGAG+CGG 0.548993 8:+82390347 MsaT046247.1:CDS
GACCGCGAAGACTTCTGCTA+TGG 0.554635 8:+82390420 MsaT046247.1:CDS
AGGCTAGATAAATGTGACAT+AGG 0.565192 8:-82387663 None:intergenic
AGAGTTGCACAGAAATGGGT+TGG 0.578468 8:+82388412 MsaT046247.1:CDS
AAGTCAGTTGCTCGTAATTG+GGG 0.584670 8:+82388458 MsaT046247.1:CDS
GTCTTCCTGATGAAATTGTA+GGG 0.587974 8:+82387898 MsaT046247.1:CDS
AAGAACATAAATCATCATAG+AGG 0.592116 8:-82387683 None:intergenic
CGAAGACTTCTGCTATGGAT+GGG 0.593997 8:+82390425 MsaT046247.1:CDS
TTCTGCCAGTGGAGAAGACA+GGG 0.594384 8:+82387839 MsaT046247.1:CDS
GTTCATTGTCAACGGCAACA+TGG 0.600217 8:-82390319 None:intergenic
GAAGGAACGAACACGAAGAG+AGG 0.628307 8:-82387349 None:intergenic
TTCAGCGATTGTGATCAAAG+AGG 0.684752 8:-82387295 None:intergenic
TAGTGGAGCTGATACTACAA+GGG 0.712956 8:+82388361 MsaT046247.1:CDS
AATTGTAGGGATGAAGCCAG+AGG 0.725736 8:+82387911 MsaT046247.1:CDS
ATGAGAGTGATGAACCTGCA+TGG 0.752863 8:+82390378 MsaT046247.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 82387144 82390463 82387144 ID=MsaG046247
Chr8 mRNA 82387144 82390463 82387144 ID=MsaT046247.1;Parent=MsaG046247
Chr8 exon 82387144 82387404 82387144 ID=MsaT046247.1.exon1;Parent=MsaT046247.1
Chr8 CDS 82387144 82387404 82387144 ID=cds.MsaT046247.1;Parent=MsaT046247.1
Chr8 exon 82387558 82387713 82387558 ID=MsaT046247.1.exon2;Parent=MsaT046247.1
Chr8 CDS 82387558 82387713 82387558 ID=cds.MsaT046247.1;Parent=MsaT046247.1
Chr8 exon 82387837 82387932 82387837 ID=MsaT046247.1.exon3;Parent=MsaT046247.1
Chr8 CDS 82387837 82387932 82387837 ID=cds.MsaT046247.1;Parent=MsaT046247.1
Chr8 exon 82388359 82388479 82388359 ID=MsaT046247.1.exon4;Parent=MsaT046247.1
Chr8 CDS 82388359 82388479 82388359 ID=cds.MsaT046247.1;Parent=MsaT046247.1
Chr8 exon 82390300 82390463 82390300 ID=MsaT046247.1.exon5;Parent=MsaT046247.1
Chr8 CDS 82390300 82390463 82390300 ID=cds.MsaT046247.1;Parent=MsaT046247.1
Gene Sequence

>MsaT046247.1

ATGACACTCATTTCTTCACTCTGTTCTTTTCCTCCAATTCATTCATCTTCTCCATTTTCAAATTCTGCATTAACATGTTCAACTTCTAACCTTAGAACTCCAATCCAATCCTCTGCTTTTTCTACAAACATTTGCACCCAAAAAATCGACACCTCTTTGATCACAATCGCTGAATCTTTCTACGATGATGAATTCTGGGCTGCTTCCTCTCTTCGTGTTCGTTCCTTCAACCAATTTCGTCCAGACACTTACGGAGTCCAAGATCATGTTAAGTACTTGGCTGAACGTGAGTTTGAAGCACTTAAGGAGCGTGTTTCAGGGAAAAAGACGGGCTTTAGAAGAGTTTCTTGCATAAATGCTTCTCTTCCTATGTCACATTTATCTAGCCTCTATGATGATTTATGTTCTTCATGTAAGTATTCTGCCAGTGGAGAAGACAGGGTTGTAGTTGGTTCTCTTGATCTTAATCAGTGCTTGAGTCTTCCTGATGAAATTGTAGGGATGAAGCCAGAGGCTAGTGGAGCTGATACTACAAGGGCGTATCTTAGTAATGTATGTGTTGCTAGAGAGTTGCACAGAAATGGGTTGGCATATGAACTTCTTGAAAAGTCAAAGTCAGTTGCTCGTAATTGGGGCATAACAGATTTGTACGTCCATGTTGCCGTTGACAATGAACCAGCAAAGAAATTGTACATGAAGAGCGGGTTTGTTTATGAGAGTGATGAACCTGCATGGCAGGCAAGGTTTCTTGATCGACCGCGAAGACTTCTGCTATGGATGGGTCTTTCAATCACCTAA

Protein sequence

>MsaT046247.1

MTLISSLCSFPPIHSSSPFSNSALTCSTSNLRTPIQSSAFSTNICTQKIDTSLITIAESFYDDEFWAASSLRVRSFNQFRPDTYGVQDHVKYLAEREFEALKERVSGKKTGFRRVSCINASLPMSHLSSLYDDLCSSCKYSASGEDRVVVGSLDLNQCLSLPDEIVGMKPEASGADTTRAYLSNVCVARELHRNGLAYELLEKSKSVARNWGITDLYVHVAVDNEPAKKLYMKSGFVYESDEPAWQARFLDRPRRLLLWMGLSIT*