AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0582870


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0582870 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa0582870 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0582870 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0582870 MtrunA17_Chr4g0016861 100.000 35 0 0 1 35 1 35 9.96e-19 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0582870 ATCG00600.1 97.222 36 1 0 1 36 1 36 2.23e-18 69.3

Find 14 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGATTGAAGTTTCTCTATT+TGG 0.115333 4_2:-1266380 Msa0582870:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 4_2:-1266484 Msa0582870:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 4_2:+1266338 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 4_2:+1266390 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 4_2:-1266344 Msa0582870:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 4_2:-1266368 Msa0582870:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 4_2:-1266348 Msa0582870:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 4_2:+1266398 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 4_2:+1266472 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 4_2:+1266489 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 4_2:-1266468 Msa0582870:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 4_2:-1266297 Msa0582870:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 4_2:-1266330 Msa0582870:CDS
GCATATTTACAATATCGACG+TGG 0.789819 4_2:-1266308 Msa0582870:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + chr4_2:1266396-1266415 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - chr4_2:1266403-1266422 Msa0582870:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + chr4_2:1266297-1266316 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - chr4_2:1266338-1266357 Msa0582870:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + chr4_2:1266353-1266372 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + chr4_2:1266376-1266395 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + chr4_2:1266377-1266396 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + chr4_2:1266388-1266407 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - chr4_2:1266435-1266454 Msa0582870:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + chr4_2:1266448-1266467 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - chr4_2:1266453-1266472 Msa0582870:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - chr4_2:1266299-1266318 Msa0582870:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + chr4_2:1266314-1266333 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - chr4_2:1266315-1266334 Msa0582870:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + chr4_2:1266374-1266393 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + chr4_2:1266375-1266394 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - chr4_2:1266415-1266434 Msa0582870:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - chr4_2:1266439-1266458 Msa0582870:intron 35.0%
GCATATTTACAATATCGACG+TGG - chr4_2:1266475-1266494 Msa0582870:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - chr4_2:1266486-1266505 Msa0582870:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
chr4_2 gene 1266292 1266513 1266292 ID=Msa0582870;Name=Msa0582870
chr4_2 mRNA 1266292 1266513 1266292 ID=Msa0582870-mRNA-1;Parent=Msa0582870;Name=Msa0582870-mRNA-1;_AED=0.21;_eAED=0.55;_QI=83|0|0|1|0|0|2|0|37
chr4_2 exon 1266469 1266513 1266469 ID=Msa0582870-mRNA-1:exon:305;Parent=Msa0582870-mRNA-1
chr4_2 exon 1266292 1266440 1266292 ID=Msa0582870-mRNA-1:exon:304;Parent=Msa0582870-mRNA-1
chr4_2 five_prime_UTR 1266469 1266513 1266469 ID=Msa0582870-mRNA-1:five_prime_utr;Parent=Msa0582870-mRNA-1
chr4_2 five_prime_UTR 1266403 1266440 1266403 ID=Msa0582870-mRNA-1:five_prime_utr;Parent=Msa0582870-mRNA-1
chr4_2 CDS 1266292 1266402 1266292 ID=Msa0582870-mRNA-1:cds;Parent=Msa0582870-mRNA-1
Gene Sequence

>Msa0582870

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa0582870

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI