AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0268450


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0268450 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa0268450 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0268450 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0268450 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
Msa0268450 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:+70231433 Msa0268450:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 2_2:+70231329 Msa0268450:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 2_2:-70231475 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 2_2:-70231423 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 2_2:+70231469 Msa0268450:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 2_2:+70231445 Msa0268450:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 2_2:+70231465 Msa0268450:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 2_2:-70231415 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 2_2:-70231341 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 2_2:-70231324 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 2_2:+70231345 Msa0268450:five_prime_UTR
ATATCGACGTGGTGATCAGT+TGG 0.572503 2_2:+70231516 Msa0268450:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 2_2:+70231483 Msa0268450:CDS
GCATATTTACAATATCGACG+TGG 0.789819 2_2:+70231505 Msa0268450:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG - chr2_2:70231426-70231445 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG + chr2_2:70231433-70231452 Msa0268450:CDS 25.0%
AATTGGCAATTGACATGATA+AGG - chr2_2:70231327-70231346 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG + chr2_2:70231368-70231387 Msa0268450:intron 30.0%
GGTAATATCTATCCTTCAAT+AGG - chr2_2:70231383-70231402 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG - chr2_2:70231406-70231425 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG - chr2_2:70231407-70231426 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG - chr2_2:70231418-70231437 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG + chr2_2:70231465-70231484 Msa0268450:CDS 30.0%
AATAATCCAGCCAAAGTAAT+AGG - chr2_2:70231478-70231497 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG + chr2_2:70231483-70231502 Msa0268450:CDS 30.0%
TCATGTCAATTGCCAATTCT+TGG + chr2_2:70231329-70231348 Msa0268450:five_prime_UTR 35.0%
GAATCTCAATGACCAAGAAT+TGG - chr2_2:70231344-70231363 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG + chr2_2:70231345-70231364 Msa0268450:five_prime_UTR 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG - chr2_2:70231404-70231423 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG - chr2_2:70231405-70231424 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG + chr2_2:70231445-70231464 Msa0268450:CDS 35.0%
CTAATTCCTATTACTTTGGC+TGG + chr2_2:70231469-70231488 Msa0268450:CDS 35.0%
GCATATTTACAATATCGACG+TGG + chr2_2:70231505-70231524 Msa0268450:CDS 35.0%
ATATCGACGTGGTGATCAGT+TGG + chr2_2:70231516-70231535 Msa0268450:CDS 45.0%
Chromosome Type Strat End Strand Name
chr2_2 gene 70231322 70231543 70231322 ID=Msa0268450;Name=Msa0268450
chr2_2 mRNA 70231322 70231543 70231322 ID=Msa0268450-mRNA-1;Parent=Msa0268450;Name=Msa0268450-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
chr2_2 exon 70231322 70231366 70231322 ID=Msa0268450-mRNA-1:exon:22552;Parent=Msa0268450-mRNA-1
chr2_2 exon 70231395 70231543 70231395 ID=Msa0268450-mRNA-1:exon:22553;Parent=Msa0268450-mRNA-1
chr2_2 five_prime_UTR 70231322 70231366 70231322 ID=Msa0268450-mRNA-1:five_prime_utr;Parent=Msa0268450-mRNA-1
chr2_2 five_prime_UTR 70231395 70231432 70231395 ID=Msa0268450-mRNA-1:five_prime_utr;Parent=Msa0268450-mRNA-1
chr2_2 CDS 70231433 70231543 70231433 ID=Msa0268450-mRNA-1:cds;Parent=Msa0268450-mRNA-1
Gene Sequence

>Msa0268450

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa0268450

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI