AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006816

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006816 MtrunA17_Chr2g0285821 92.537 134 5 3 1 130 1 133 5.87e-82 236
MsaG006816 MtrunA17_Chr8g0393051 72.180 133 16 6 1 129 1 116 5.52e-55 167
MsaG006816 MtrunA17_Chr8g0376421 54.962 131 47 4 2 130 4 124 1.15e-30 106
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006816 AT1G30135.1 44.275 131 67 4 1 130 3 128 7.96e-27 97.4
MsaG006816 AT2G34600.1 41.481 135 67 7 1 131 20 146 2.64e-17 73.6

Find 26 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGCTTACATGGGGTGATTT+TGG 0.252416 2:+10200877 None:intergenic
TGCACTATTGTTGGTGTTGA+TGG 0.316876 2:+10198440 None:intergenic
GATGATATGGAGATGCTTCT+TGG 0.331037 2:+10198330 None:intergenic
TACTGATGTCACAGAGCTTC+AGG 0.335972 2:-10200657 MsaT006816.1:intron
TGCCAGCATTAAGATGGATT+TGG 0.344981 2:+10198511 None:intergenic
AATTGTTGTATGGAGGAAAA+AGG 0.349461 2:+10200910 None:intergenic
CATCTTGCCATCGTAGAAAA+TGG 0.392349 2:+10200685 None:intergenic
GTTGATGGTTCTGACCCTAT+TGG 0.411337 2:+10198455 None:intergenic
TCTATTTGCCAGCATTAAGA+TGG 0.436860 2:+10198505 None:intergenic
TTCATGGAAAGACCTGGTCC+AGG 0.470860 2:+10198395 None:intergenic
TCTACAAAAGAGAAAGAATA+GGG 0.475189 2:-10198354 MsaT006816.1:CDS
TTCTACAAAAGAGAAAGAAT+AGG 0.501770 2:-10198355 MsaT006816.1:CDS
TGAGGAGATTGCACTATTGT+TGG 0.504260 2:+10198431 None:intergenic
TGATTGCTAGAATTGTTGTA+TGG 0.511394 2:+10200900 None:intergenic
GGCCAAATCCATCTTAATGC+TGG 0.519970 2:-10198513 MsaT006816.1:CDS
CCATGAAAAGATCTTTGCAA+AGG 0.529406 2:-10198379 MsaT006816.1:CDS
CCTCATCAATTATATAGCCC+TGG 0.530434 2:-10198413 MsaT006816.1:CDS
TCAATAAAGGGTAGAAGAAG+AGG 0.532802 2:-10200753 MsaT006816.1:intron
GATGAGGAGGAATTGCAACT+TGG 0.553645 2:-10200940 MsaT006816.1:CDS
CAATTATATAGCCCTGGACC+AGG 0.570726 2:-10198407 MsaT006816.1:CDS
AATGCTGGCAAATAGAATGA+AGG 0.571363 2:-10198498 MsaT006816.1:CDS
GAAATACAGAAAAGATGAGG+AGG 0.572260 2:-10200953 None:intergenic
TCATGGAAAGACCTGGTCCA+GGG 0.597585 2:+10198396 None:intergenic
TTGCTAGAATTGTTGTATGG+AGG 0.628547 2:+10200903 None:intergenic
CCAGGGCTATATAATTGATG+AGG 0.642818 2:+10198413 None:intergenic
CCATCGTAGAAAATGGTCAG+TGG 0.671131 2:+10200692 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 10198325 10200961 10198325 ID=MsaG006816
Chr2 mRNA 10198325 10200961 10198325 ID=MsaT006816.1;Parent=MsaG006816
Chr2 exon 10198325 10198534 10198325 ID=MsaT006816.1.exon3;Parent=MsaT006816.1
Chr2 CDS 10198325 10198534 10198325 ID=cds.MsaT006816.1;Parent=MsaT006816.1
Chr2 exon 10200658 10200766 10200658 ID=MsaT006816.1.exon2;Parent=MsaT006816.1
Chr2 CDS 10200658 10200766 10200658 ID=cds.MsaT006816.1;Parent=MsaT006816.1
Chr2 exon 10200885 10200961 10200885 ID=MsaT006816.1.exon1;Parent=MsaT006816.1
Chr2 CDS 10200885 10200961 10200885 ID=cds.MsaT006816.1;Parent=MsaT006816.1
Gene Sequence

>MsaT006816.1

ATGAGGAGGAATTGCAACTTGGAACTATGCCTTTTTCCTCCATACAACAATTCTAGCAATCACCAAAATCACCCCATGGTAGAAGAAGAGGATAGTAATGAGAGCACTCCAATGCAAAATCAGCAACAGCCACTGACCATTTTCTACGATGGCAAGATGTGTGTTACTGATGTCACAGAGCTTCAGGCCAAATCCATCTTAATGCTGGCAAATAGAATGAAGGTGCTAGAAAAAGTGACGACACCAATAGGGTCAGAACCATCAACACCAACAATAGTGCAATCTCCTCATCAATTATATAGCCCTGGACCAGGTCTTTCCATGAAAAGATCTTTGCAAAGGTTTCTACAAAAGAGAAAGAATAGGGTCCAAGAAGCATCTCCATATCATCGTTAG
Protein sequence

>MsaT006816.1

MRRNCNLELCLFPPYNNSSNHQNHPMVEEEDSNESTPMQNQQQPLTIFYDGKMCVTDVTELQAKSILMLANRMKVLEKVTTPIGSEPSTPTIVQSPHQLYSPGPGLSMKRSLQRFLQKRKNRVQEASPYHR*