AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005619

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005619 MtrunA17_Chr1g0210351 92.857 182 8 2 1 177 1 182 4.58e-121 342
MsaG005619 MtrunA17_Chr7g0267101 49.223 193 71 8 1 178 1 181 6.03e-48 157
MsaG005619 MtrunA17_Chr1g0177911 39.267 191 86 6 4 178 3 179 3.92e-31 112
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005619 AT5G04820.1 51.456 206 58 9 1 177 1 193 1.35e-49 161
MsaG005619 AT2G36050.1 46.809 94 34 5 95 177 66 154 4.04e-17 76.6
MsaG005619 AT3G52540.1 50.562 89 38 4 95 177 93 181 4.20e-15 71.6

Find 27 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCTATAATGTTCTCTGTT+TGG 0.328276 1:+83486965 None:intergenic
AACACAACACTTTCTTTGAA+TGG 0.349626 1:+83486757 None:intergenic
CTACAACGACGGCGAATCAT+TGG 0.389604 1:-83486872 MsaT005619.1:CDS
GATCTCTTAAAATCTTCATA+TGG 0.409145 1:+83486715 None:intergenic
AGTCTCATGGTGTGAAAGAT+TGG 0.409364 1:-83486675 MsaT005619.1:CDS
GATGTTGTGAACCATGATTT+TGG 0.433746 1:+83486940 None:intergenic
TGTGAAAGATTGGGAAGGTT+TGG 0.450919 1:-83486665 MsaT005619.1:CDS
ACCTGGTATTTGAAAGTGAA+TGG 0.474527 1:-83486631 MsaT005619.1:intron
TGGCAATTCTTACCCTCTTG+TGG 0.498707 1:-83487069 MsaT005619.1:CDS
TAAGAGATCAATGGAAGAGA+TGG 0.508969 1:-83486701 MsaT005619.1:CDS
ACCATTCACTTTCAAATACC+AGG 0.520873 1:+83486630 None:intergenic
AGAAAGTGTTGTGTTAGCTA+TGG 0.521557 1:-83486749 MsaT005619.1:CDS
CACGAGTTCGATCTTAGAAA+AGG 0.522622 1:-83486797 MsaT005619.1:CDS
TGATGATGACATATTCAAAA+CGG 0.538193 1:-83487007 MsaT005619.1:CDS
TTATAGAAACACCAAAATCA+TGG 0.542649 1:-83486951 MsaT005619.1:CDS
GTCTCATGGTGTGAAAGATT+GGG 0.558996 1:-83486674 MsaT005619.1:CDS
TTAGAAAAGGCGAAAGCGAA+TGG 0.571257 1:-83486784 MsaT005619.1:CDS
CACAAAGAAAACAACATCCA+TGG 0.572198 1:-83487089 MsaT005619.1:CDS
CGGCGAATCATTGGAGACAT+TGG 0.582049 1:-83486863 MsaT005619.1:CDS
CAAGAGGGTAAGAATTGCCA+TGG 0.585631 1:+83487072 None:intergenic
TGAGAAACTTGCAGATTCAG+AGG 0.589678 1:+83486918 None:intergenic
TGTGTTAGCTATGGAGTCAG+AGG 0.627955 1:-83486740 MsaT005619.1:CDS
GAAGAGATGGTTGAGTCTCA+TGG 0.637125 1:-83486688 MsaT005619.1:CDS
CATGGTGTGAAAGATTGGGA+AGG 0.649930 1:-83486670 MsaT005619.1:CDS
ATTGGTACGAGGAGTTAAGT+CGG 0.655000 1:-83486845 MsaT005619.1:CDS
GATTACTATTGCTACAACGA+CGG 0.655187 1:-83486883 MsaT005619.1:CDS
TCATTGGAGACATTGGTACG+AGG 0.730029 1:-83486856 MsaT005619.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 83486361 83487163 83486361 ID=MsaG005619
Chr1 mRNA 83486361 83487163 83486361 ID=MsaT005619.1;Parent=MsaG005619
Chr1 exon 83486361 83486365 83486361 ID=MsaT005619.1.exon2;Parent=MsaT005619.1
Chr1 CDS 83486361 83486365 83486361 ID=cds.MsaT005619.1;Parent=MsaT005619.1
Chr1 exon 83486632 83487163 83486632 ID=MsaT005619.1.exon1;Parent=MsaT005619.1
Chr1 CDS 83486632 83487163 83486632 ID=cds.MsaT005619.1;Parent=MsaT005619.1
Gene Sequence

>MsaT005619.1

ATGGGAAAGAAAAATTTGAAACTACCTTCTCTTTTCAAAACCAAAGAAATTTCACAAAGAAAACAACATCCATGGCAATTCTTACCCTCTTGTGGCCATCCAAAAACTCTTTCTTTTCGAGTTGGTGGTACTACTGATGATGACATATTCAAAACGGTTAATTCTGTGTTTTTTGACCAAACAGAGAACATTATAGAAACACCAAAATCATGGTTCACAACATCCTCTGAATCTGCAAGTTTCTCAACAGAATCAGAAGATTACTATTGCTACAACGACGGCGAATCATTGGAGACATTGGTACGAGGAGTTAAGTCGGAGAGATTGTTTTTCGAAGCAGAAGACACGAGTTCGATCTTAGAAAAGGCGAAAGCGAATGGTTTTCCATTCAAAGAAAGTGTTGTGTTAGCTATGGAGTCAGAGGATCCATATGAAGATTTTAAGAGATCAATGGAAGAGATGGTTGAGTCTCATGGTGTGAAAGATTGGGAAGGTTTGGAAGAGCTTTTGACCTGGTATTTGAAAGTGAATGATTGA
Protein sequence

>MsaT005619.1

MGKKNLKLPSLFKTKEISQRKQHPWQFLPSCGHPKTLSFRVGGTTDDDIFKTVNSVFFDQTENIIETPKSWFTTSSESASFSTESEDYYCYNDGESLETLVRGVKSERLFFEAEDTSSILEKAKANGFPFKESVVLAMESEDPYEDFKRSMEEMVESHGVKDWEGLEELLTWYLKVND*