AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0830230


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0830230 MtrunA17_Chr5g0393861 98.592 71 1 0 1 71 1 71 1.33e-44 137
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0830230 AT3G19660.1 58.333 60 22 1 1 60 1 57 4.14e-14 60.8

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_4:+3278390 None:intergenic
AATAAGAATAAGAAATTATA+TGG 0.312903 5_4:+3278263 None:intergenic
ATTATTATCAGCAGCTTTCA+AGG 0.340671 5_4:+3278311 None:intergenic
GGCAAATCAGCTGGGAAATC+TGG 0.373442 5_4:-3278469 Msa0830230:CDS
TAGAAGAATGGCAAATCAGC+TGG 0.458624 5_4:-3278478 None:intergenic
TATGGTGACGTTGTGCTTGG+TGG 0.495638 5_4:+3278281 None:intergenic
AAAGAAGCCATACATAAAGA+TGG 0.499886 5_4:-3278397 Msa0830230:CDS
TCAACGTTGAAGATGAAGAA+AGG 0.541828 5_4:-3278420 Msa0830230:CDS
ATGGTGACGTTGTGCTTGGT+GGG 0.550470 5_4:+3278282 None:intergenic
TTATATGGTGACGTTGTGCT+TGG 0.570731 5_4:+3278278 None:intergenic
GGTGGAGTCAATAAAGTCAA+AGG 0.580028 5_4:-3278448 Msa0830230:CDS
AGAAGAATGGCAAATCAGCT+GGG 0.603317 5_4:-3278477 None:intergenic
GTGACGTTGTGCTTGGTGGG+TGG 0.620978 5_4:+3278285 None:intergenic
AAATCAGCTGGGAAATCTGG+TGG 0.634337 5_4:-3278466 Msa0830230:CDS
GGACAAGAGTGCAAGTGTGA+AGG 0.667874 5_4:-3278376 Msa0830230:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAAGAAGCCATACATAAAGA+TGG - chr5_4:3278352-3278371 Msa0830230:CDS 30.0%
ATTATTATCAGCAGCTTTCA+AGG + chr5_4:3278441-3278460 None:intergenic 30.0%
TCAACGTTGAAGATGAAGAA+AGG - chr5_4:3278329-3278348 Msa0830230:CDS 35.0%
CTCTTGTCCATCTTTATGTA+TGG + chr5_4:3278362-3278381 None:intergenic 35.0%
GGTGGAGTCAATAAAGTCAA+AGG - chr5_4:3278301-3278320 Msa0830230:CDS 40.0%
! TTATATGGTGACGTTGTGCT+TGG + chr5_4:3278474-3278493 None:intergenic 40.0%
AAATCAGCTGGGAAATCTGG+TGG - chr5_4:3278283-3278302 Msa0830230:CDS 45.0%
GGCAAATCAGCTGGGAAATC+TGG - chr5_4:3278280-3278299 Msa0830230:CDS 50.0%
! GGACAAGAGTGCAAGTGTGA+AGG - chr5_4:3278373-3278392 Msa0830230:CDS 50.0%
! ATGGTGACGTTGTGCTTGGT+GGG + chr5_4:3278470-3278489 None:intergenic 50.0%
! TATGGTGACGTTGTGCTTGG+TGG + chr5_4:3278471-3278490 None:intergenic 50.0%
! GTGACGTTGTGCTTGGTGGG+TGG + chr5_4:3278467-3278486 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
chr5_4 gene 3278278 3278493 3278278 ID=Msa0830230;Name=Msa0830230
chr5_4 mRNA 3278278 3278493 3278278 ID=Msa0830230-mRNA-1;Parent=Msa0830230;Name=Msa0830230-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|71
chr5_4 exon 3278278 3278493 3278278 ID=Msa0830230-mRNA-1:exon:1146;Parent=Msa0830230-mRNA-1
chr5_4 CDS 3278278 3278493 3278278 ID=Msa0830230-mRNA-1:cds;Parent=Msa0830230-mRNA-1
Gene Sequence

>Msa0830230

ATGGCAAATCAGCTGGGAAATCTGGTGGAGTCAATAAAGTCAAAGGTGAAGTCAACGTTGAAGATGAAGAAAGGAAAGAAGCCATACATAAAGATGGACAAGAGTGCAAGTGTGAAGGTTGAGATTCGAAGCAGAAAAGCTCGTAAGCTTATTGAAAAGACCTTGAAAGCTGCTGATAATAATATTCCACCCACCAAGCACAACGTCACCATATAA

Protein sequence

>Msa0830230

MANQLGNLVESIKSKVKSTLKMKKGKKPYIKMDKSASVKVEIRSRKARKLIEKTLKAADNNIPPTKHNVTI*