AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1380220


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1380220 MtrunA17_Chr5g0393861 95.890 73 1 1 1 73 1 71 1.15e-42 132
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1380220 AT3G19660.1 58.333 60 22 1 1 60 1 57 4.67e-14 60.5

Find 15 sgRNAs with CRISPR-Local

Find 12 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTGTCCATCTTTATGTA+TGG 0.307750 tig0020341:+45077 None:intergenic
AATAAGAATAAGAAATTATA+TGG 0.312903 tig0020341:+44944 None:intergenic
ATTATTATCAGCAGCTTTCA+AGG 0.340671 tig0020341:+44998 None:intergenic
GGCAAATCAGCTGGGAAATC+TGG 0.373442 tig0020341:-45156 Msa1380220:CDS
GACGTTGTGCTTGGTCTTAG+TGG 0.439128 tig0020341:+44968 None:intergenic
TAGAAGAATGGCAAATCAGC+TGG 0.458624 tig0020341:-45165 None:intergenic
AAAGAAGCCATACATAAAGA+TGG 0.499886 tig0020341:-45084 Msa1380220:CDS
ACGTTGTGCTTGGTCTTAGT+GGG 0.536017 tig0020341:+44969 None:intergenic
TCAACGTTGAAGATGAAGAA+AGG 0.541828 tig0020341:-45107 Msa1380220:CDS
TTATATGGTGACGTTGTGCT+TGG 0.549241 tig0020341:+44959 None:intergenic
GGTGGAGTCAATAAAGTCAA+AGG 0.580028 tig0020341:-45135 Msa1380220:CDS
AGAAGAATGGCAAATCAGCT+GGG 0.603317 tig0020341:-45164 None:intergenic
TTGTGCTTGGTCTTAGTGGG+TGG 0.613312 tig0020341:+44972 None:intergenic
AAATCAGCTGGGAAATCTGG+TGG 0.634337 tig0020341:-45153 Msa1380220:CDS
GGACAAGAGTGCAAGTGTGA+AGG 0.667874 tig0020341:-45063 Msa1380220:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAAGAAGCCATACATAAAGA+TGG - tig0020341:45033-45052 Msa1380220:CDS 30.0%
ATTATTATCAGCAGCTTTCA+AGG + tig0020341:45122-45141 None:intergenic 30.0%
TCAACGTTGAAGATGAAGAA+AGG - tig0020341:45010-45029 Msa1380220:CDS 35.0%
CTCTTGTCCATCTTTATGTA+TGG + tig0020341:45043-45062 None:intergenic 35.0%
GGTGGAGTCAATAAAGTCAA+AGG - tig0020341:44982-45001 Msa1380220:CDS 40.0%
! TTATATGGTGACGTTGTGCT+TGG + tig0020341:45161-45180 None:intergenic 40.0%
AAATCAGCTGGGAAATCTGG+TGG - tig0020341:44964-44983 Msa1380220:CDS 45.0%
!! ACGTTGTGCTTGGTCTTAGT+GGG + tig0020341:45151-45170 None:intergenic 45.0%
GGCAAATCAGCTGGGAAATC+TGG - tig0020341:44961-44980 Msa1380220:CDS 50.0%
! GGACAAGAGTGCAAGTGTGA+AGG - tig0020341:45054-45073 Msa1380220:CDS 50.0%
!! TTGTGCTTGGTCTTAGTGGG+TGG + tig0020341:45148-45167 None:intergenic 50.0%
!! GACGTTGTGCTTGGTCTTAG+TGG + tig0020341:45152-45171 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
tig0020341 gene 44959 45180 44959 ID=Msa1380220;Name=Msa1380220
tig0020341 mRNA 44959 45180 44959 ID=Msa1380220-mRNA-1;Parent=Msa1380220;Name=Msa1380220-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|73
tig0020341 exon 44959 45180 44959 ID=Msa1380220-mRNA-1:exon:7003;Parent=Msa1380220-mRNA-1
tig0020341 CDS 44959 45180 44959 ID=Msa1380220-mRNA-1:cds;Parent=Msa1380220-mRNA-1
Gene Sequence

>Msa1380220

ATGGCAAATCAGCTGGGAAATCTGGTGGAGTCAATAAAGTCAAAGGTGAAGTCAACGTTGAAGATGAAGAAAGGAAAGAAGCCATACATAAAGATGGACAAGAGTGCAAGTGTGAAGGTTGAGATTCGAAGCAGAAAAGCTCGTAAGCTTATTGAAAAGACCTTGAAAGCTGCTGATAATAATATTCCACCCACTAAGACCAAGCACAACGTCACCATATAA

Protein sequence

>Msa1380220

MANQLGNLVESIKSKVKSTLKMKKGKKPYIKMDKSASVKVEIRSRKARKLIEKTLKAADNNIPPTKTKHNVTI*