AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0711150


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0711150 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
Msa0711150 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 5_1:+2989537 None:intergenic
AATAAGAATAAGAAATTATA+TGG 0.312903 5_1:+2989404 None:intergenic
ATTATTATCAGCAGCTTTCA+AGG 0.340671 5_1:+2989458 None:intergenic
GGCAAATCAGCTGGGAAATC+TGG 0.373442 5_1:-2989616 Msa0711150:CDS
GACGTTGTGCTTGGTCTTAG+TGG 0.439128 5_1:+2989428 None:intergenic
TAGAAGAATGGCAAATCAGC+TGG 0.458624 5_1:-2989625 None:intergenic
AAAGAAGCCATACATAAAGA+TGG 0.499886 5_1:-2989544 Msa0711150:CDS
ACGTTGTGCTTGGTCTTAGT+GGG 0.536017 5_1:+2989429 None:intergenic
TCAACGTTGAAGATGAAGAA+AGG 0.541828 5_1:-2989567 Msa0711150:CDS
TTATATGGTGACGTTGTGCT+TGG 0.549241 5_1:+2989419 None:intergenic
GGTGGAGTCAATAAAGTCAA+AGG 0.580028 5_1:-2989595 Msa0711150:CDS
AGAAGAATGGCAAATCAGCT+GGG 0.603317 5_1:-2989624 None:intergenic
TTGTGCTTGGTCTTAGTGGG+TGG 0.613312 5_1:+2989432 None:intergenic
AAATCAGCTGGGAAATCTGG+TGG 0.634337 5_1:-2989613 Msa0711150:CDS
GGACAAGAGTGCAAGTGTGA+AGG 0.667874 5_1:-2989523 Msa0711150:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAAGAAGCCATACATAAAGA+TGG - chr5_1:2989493-2989512 Msa0711150:CDS 30.0%
ATTATTATCAGCAGCTTTCA+AGG + chr5_1:2989582-2989601 None:intergenic 30.0%
TCAACGTTGAAGATGAAGAA+AGG - chr5_1:2989470-2989489 Msa0711150:CDS 35.0%
CTCTTGTCCATCTTTATGTA+TGG + chr5_1:2989503-2989522 None:intergenic 35.0%
GGTGGAGTCAATAAAGTCAA+AGG - chr5_1:2989442-2989461 Msa0711150:CDS 40.0%
! TTATATGGTGACGTTGTGCT+TGG + chr5_1:2989621-2989640 None:intergenic 40.0%
AAATCAGCTGGGAAATCTGG+TGG - chr5_1:2989424-2989443 Msa0711150:CDS 45.0%
!! ACGTTGTGCTTGGTCTTAGT+GGG + chr5_1:2989611-2989630 None:intergenic 45.0%
GGCAAATCAGCTGGGAAATC+TGG - chr5_1:2989421-2989440 Msa0711150:CDS 50.0%
! GGACAAGAGTGCAAGTGTGA+AGG - chr5_1:2989514-2989533 Msa0711150:CDS 50.0%
!! TTGTGCTTGGTCTTAGTGGG+TGG + chr5_1:2989608-2989627 None:intergenic 50.0%
!! GACGTTGTGCTTGGTCTTAG+TGG + chr5_1:2989612-2989631 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
chr5_1 gene 2989419 2989640 2989419 ID=Msa0711150;Name=Msa0711150
chr5_1 mRNA 2989419 2989640 2989419 ID=Msa0711150-mRNA-1;Parent=Msa0711150;Name=Msa0711150-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|73
chr5_1 exon 2989419 2989640 2989419 ID=Msa0711150-mRNA-1:exon:990;Parent=Msa0711150-mRNA-1
chr5_1 CDS 2989419 2989640 2989419 ID=Msa0711150-mRNA-1:cds;Parent=Msa0711150-mRNA-1
Gene Sequence

>Msa0711150

ATGGCAAATCAGCTGGGAAATCTGGTGGAGTCAATAAAGTCAAAGGTGAAGTCAACGTTGAAGATGAAGAAAGGAAAGAAGCCATACATAAAGATGGACAAGAGTGCAAGTGTGAAGGTTGAGATTCGAAGCAGAAAAGCTCGTAAGCTTATTGAAAAGACCTTGAAAGCTGCTGATAATAATATTCCACCCACTAAGACCAAGCACAACGTCACCATATAA

Protein sequence

>Msa0711150

MANQLGNLVESIKSKVKSTLKMKKGKKPYIKMDKSASVKVEIRSRKARKLIEKTLKAADNNIPPTKTKHNVTI*