AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0268510


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0268510 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa0268510 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0268510 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0268510 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
Msa0268510 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 2_2:-70290464 Msa0268510:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 2_2:-70290568 Msa0268510:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 2_2:+70290422 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 2_2:+70290474 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 2_2:-70290428 Msa0268510:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 2_2:-70290452 Msa0268510:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 2_2:-70290432 Msa0268510:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 2_2:+70290482 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 2_2:+70290556 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 2_2:+70290573 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 2_2:-70290552 Msa0268510:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 2_2:-70290381 Msa0268510:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 2_2:-70290414 Msa0268510:CDS
GCATATTTACAATATCGACG+TGG 0.789819 2_2:-70290392 Msa0268510:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + chr2_2:70290480-70290499 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - chr2_2:70290487-70290506 Msa0268510:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + chr2_2:70290381-70290400 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - chr2_2:70290422-70290441 Msa0268510:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + chr2_2:70290437-70290456 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + chr2_2:70290460-70290479 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + chr2_2:70290461-70290480 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + chr2_2:70290472-70290491 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - chr2_2:70290519-70290538 Msa0268510:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + chr2_2:70290532-70290551 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - chr2_2:70290537-70290556 Msa0268510:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - chr2_2:70290383-70290402 Msa0268510:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + chr2_2:70290398-70290417 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - chr2_2:70290399-70290418 Msa0268510:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + chr2_2:70290458-70290477 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + chr2_2:70290459-70290478 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - chr2_2:70290499-70290518 Msa0268510:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - chr2_2:70290523-70290542 Msa0268510:intron 35.0%
GCATATTTACAATATCGACG+TGG - chr2_2:70290559-70290578 Msa0268510:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - chr2_2:70290570-70290589 Msa0268510:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
chr2_2 gene 70290376 70290597 70290376 ID=Msa0268510;Name=Msa0268510
chr2_2 mRNA 70290376 70290597 70290376 ID=Msa0268510-mRNA-1;Parent=Msa0268510;Name=Msa0268510-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
chr2_2 exon 70290553 70290597 70290553 ID=Msa0268510-mRNA-1:exon:22613;Parent=Msa0268510-mRNA-1
chr2_2 exon 70290376 70290524 70290376 ID=Msa0268510-mRNA-1:exon:22612;Parent=Msa0268510-mRNA-1
chr2_2 five_prime_UTR 70290553 70290597 70290553 ID=Msa0268510-mRNA-1:five_prime_utr;Parent=Msa0268510-mRNA-1
chr2_2 five_prime_UTR 70290487 70290524 70290487 ID=Msa0268510-mRNA-1:five_prime_utr;Parent=Msa0268510-mRNA-1
chr2_2 CDS 70290376 70290486 70290376 ID=Msa0268510-mRNA-1:cds;Parent=Msa0268510-mRNA-1
Gene Sequence

>Msa0268510

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa0268510

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI