AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001548

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001548 MtrunA17_Chr1g0203051 46.875 160 71 5 46 193 25 182 2.86e-38 139
MsaG001548 MtrunA17_Chr8g0389811 44.203 138 69 2 48 177 26 163 1.07e-36 127
MsaG001548 MtrunA17_Chr6g0473421 45.192 104 57 0 79 182 36 139 4.95e-32 113
MsaG001548 MtrunA17_Chr1g0172931 48.649 111 57 0 67 177 45 155 3.85e-31 111
MsaG001548 MtrunA17_Chr2g0331371 46.465 99 53 0 79 177 36 134 4.21e-26 99.8
MsaG001548 MtrunA17_Chr8g0366311 49.333 75 34 1 58 128 35 109 1.16e-18 77.8
MsaG001548 MtrunA17_Chr1g0171741 38.542 96 58 1 80 175 115 209 4.21e-17 77.0
MsaG001548 MtrunA17_Chr2g0287651 40.909 88 52 0 89 176 66 153 1.56e-14 71.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCTCGTGGATAAACTATTT+TGG 0.218172 1:-22179476 None:intergenic
ACCTCTGTCCCTTCGATTGT+TGG 0.252666 1:-22178644 None:intergenic
TTTCATTGCGAGCAAGAAAA+TGG 0.302176 1:+22178611 MsaT001548.1:CDS
GTCCCTTCGATTGTTGGATT+TGG 0.315103 1:-22178638 None:intergenic
GTGAACGGTTTGGATGATTT+AGG 0.346177 1:+22179147 MsaT001548.1:CDS
TCACAACCACATCTAGTAAC+TGG 0.361417 1:-22179408 None:intergenic
CATTCTTGTTTCTCATCACA+TGG 0.413691 1:-22179293 None:intergenic
GGCAACAGCGGTGAACGGTT+TGG 0.434227 1:+22179137 MsaT001548.1:CDS
TGGAAGAAATTTCGCTGGTA+CGG 0.492997 1:+22179029 MsaT001548.1:CDS
ATATAAGCAACATCAAGGTC+TGG 0.499264 1:-22179222 None:intergenic
GAAACTGTTGATGGTGTGCC+TGG 0.501619 1:+22179096 MsaT001548.1:CDS
TGGTGGATGTACATTTGATT+CGG 0.503006 1:+22179116 MsaT001548.1:CDS
ATTGCAACAAAAGAACAGAT+AGG 0.503360 1:+22179370 MsaT001548.1:CDS
AATGTTGAAGAAACTGTTGA+TGG 0.519728 1:+22179087 MsaT001548.1:CDS
AATTGGTATGCTAGTAGCCA+AGG 0.533965 1:+22179252 MsaT001548.1:CDS
TCCGACACTGATGACTCTGT+TGG 0.541653 1:+22179060 MsaT001548.1:CDS
GATTCGGCAACAGCGGTGAA+CGG 0.545580 1:+22179132 MsaT001548.1:CDS
GGGATTGGAAGAAATTTCGC+TGG 0.549554 1:+22179024 MsaT001548.1:intron
GAAGATCATCTCTTGCAGTA+AGG 0.550247 1:-22179452 None:intergenic
GCAAAACCAGTTACTAGATG+TGG 0.555440 1:+22179402 MsaT001548.1:CDS
AAAACATATAAGCAACATCA+AGG 0.568144 1:-22179227 None:intergenic
AGGAAATTCAGCATCAGCCA+TGG 0.587086 1:-22178588 None:intergenic
CCAAAATAGTTTATCCACGA+GGG 0.593078 1:+22179476 MsaT001548.1:CDS
TACATTTGATTCGGCAACAG+CGG 0.597939 1:+22179125 MsaT001548.1:CDS
TCCAACAGAGTCATCAGTGT+CGG 0.603321 1:-22179061 None:intergenic
GTGTCACAAAGAAGGACAGA+GGG 0.614620 1:+22179341 MsaT001548.1:CDS
GTACCAAATCCAACAATCGA+AGG 0.620061 1:+22178635 MsaT001548.1:CDS
CTTCATGAACATTACTGCAG+AGG 0.628470 1:+22179179 MsaT001548.1:CDS
TCCAACAATCGAAGGGACAG+AGG 0.639132 1:+22178643 MsaT001548.1:CDS
TACCAAATCCAACAATCGAA+GGG 0.641670 1:+22178636 MsaT001548.1:CDS
CATGTGATGAGAAACAAGAA+TGG 0.660827 1:+22179294 MsaT001548.1:CDS
AATATGTTAGCAAGCCCTCG+TGG 0.662416 1:-22179490 None:intergenic
ACTGTTGATGGTGTGCCTGG+TGG 0.662542 1:+22179099 MsaT001548.1:CDS
TGTGTCACAAAGAAGGACAG+AGG 0.666641 1:+22179340 MsaT001548.1:CDS
GAATCAAATGTACATCCACC+AGG 0.673330 1:-22179114 None:intergenic
ACCAAAATAGTTTATCCACG+AGG 0.693411 1:+22179475 MsaT001548.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 22178590 22179506 22178590 ID=MsaG001548
Chr1 mRNA 22178590 22179506 22178590 ID=MsaT001548.1;Parent=MsaG001548
Chr1 exon 22178590 22178664 22178590 ID=MsaT001548.1.exon1;Parent=MsaT001548.1
Chr1 CDS 22178590 22178664 22178590 ID=cds.MsaT001548.1;Parent=MsaT001548.1
Chr1 exon 22178743 22178782 22178743 ID=MsaT001548.1.exon2;Parent=MsaT001548.1
Chr1 CDS 22178743 22178782 22178743 ID=cds.MsaT001548.1;Parent=MsaT001548.1
Chr1 exon 22179025 22179506 22179025 ID=MsaT001548.1.exon3;Parent=MsaT001548.1
Chr1 CDS 22179025 22179506 22179025 ID=cds.MsaT001548.1;Parent=MsaT001548.1
Gene Sequence

>MsaT001548.1

ATGGCTGATGCTGAATTTCCTTTTCATTGCGAGCAAGAAAATGGTGTACCAAATCCAACAATCGAAGGGACAGAGATTAAAGATCCTGATATTTACAACAATCAAAAGATTTTTTGGATTGGAAGAAATTTCGCTGGTACGGAAAATTCATCCGACACTGATGACTCTGTTGGAGAAAATGTTGAAGAAACTGTTGATGGTGTGCCTGGTGGATGTACATTTGATTCGGCAACAGCGGTGAACGGTTTGGATGATTTAGGTGAAATAAACTTCATGAACATTACTGCAGAGGCAATAGTGAGATATCATTTTCCAGACCTTGATGTTGCTTATATGTTTTATAATTGGTATGCTAGTAGCCAAGGATTTTCAGCAAGGAAAAGCCATGTGATGAGAAACAAGAATGGTGACGTAACACAGAAAACATTTTTGTGTCACAAAGAAGGACAGAGGGAAGAAAATTGCAACAAAAGAACAGATAGGAAACGATTAGCAAAACCAGTTACTAGATGTGGTTGTGAAGCAAGATGCTTAAATACTGACCTTACTGCAAGAGATGATCTTCACCAAAATAGTTTATCCACGAGGGCTTGCTAA
Protein sequence

>MsaT001548.1

MADAEFPFHCEQENGVPNPTIEGTEIKDPDIYNNQKIFWIGRNFAGTENSSDTDDSVGENVEETVDGVPGGCTFDSATAVNGLDDLGEINFMNITAEAIVRYHFPDLDVAYMFYNWYASSQGFSARKSHVMRNKNGDVTQKTFLCHKEGQREENCNKRTDRKRLAKPVTRCGCEARCLNTDLTARDDLHQNSLSTRAC*