AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0268670


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0268670 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa0268670 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0268670 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0268670 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
Msa0268670 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:+70359718 Msa0268670:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 2_2:+70359614 Msa0268670:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 2_2:-70359760 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 2_2:-70359708 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 2_2:+70359754 Msa0268670:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 2_2:+70359730 Msa0268670:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 2_2:+70359750 Msa0268670:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 2_2:-70359700 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 2_2:-70359626 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 2_2:-70359609 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 2_2:+70359630 Msa0268670:five_prime_UTR
ATATCGACGTGGTGATCAGT+TGG 0.572503 2_2:+70359801 Msa0268670:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 2_2:+70359768 Msa0268670:CDS
GCATATTTACAATATCGACG+TGG 0.789819 2_2:+70359790 Msa0268670:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG - chr2_2:70359711-70359730 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG + chr2_2:70359718-70359737 Msa0268670:CDS 25.0%
AATTGGCAATTGACATGATA+AGG - chr2_2:70359612-70359631 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG + chr2_2:70359653-70359672 Msa0268670:intron 30.0%
GGTAATATCTATCCTTCAAT+AGG - chr2_2:70359668-70359687 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG - chr2_2:70359691-70359710 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG - chr2_2:70359692-70359711 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG - chr2_2:70359703-70359722 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG + chr2_2:70359750-70359769 Msa0268670:CDS 30.0%
AATAATCCAGCCAAAGTAAT+AGG - chr2_2:70359763-70359782 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG + chr2_2:70359768-70359787 Msa0268670:CDS 30.0%
TCATGTCAATTGCCAATTCT+TGG + chr2_2:70359614-70359633 Msa0268670:five_prime_UTR 35.0%
GAATCTCAATGACCAAGAAT+TGG - chr2_2:70359629-70359648 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG + chr2_2:70359630-70359649 Msa0268670:five_prime_UTR 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG - chr2_2:70359689-70359708 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG - chr2_2:70359690-70359709 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG + chr2_2:70359730-70359749 Msa0268670:CDS 35.0%
CTAATTCCTATTACTTTGGC+TGG + chr2_2:70359754-70359773 Msa0268670:CDS 35.0%
GCATATTTACAATATCGACG+TGG + chr2_2:70359790-70359809 Msa0268670:CDS 35.0%
ATATCGACGTGGTGATCAGT+TGG + chr2_2:70359801-70359820 Msa0268670:CDS 45.0%
Chromosome Type Strat End Strand Name
chr2_2 gene 70359607 70359828 70359607 ID=Msa0268670;Name=Msa0268670
chr2_2 mRNA 70359607 70359828 70359607 ID=Msa0268670-mRNA-1;Parent=Msa0268670;Name=Msa0268670-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
chr2_2 exon 70359607 70359651 70359607 ID=Msa0268670-mRNA-1:exon:22610;Parent=Msa0268670-mRNA-1
chr2_2 exon 70359680 70359828 70359680 ID=Msa0268670-mRNA-1:exon:22611;Parent=Msa0268670-mRNA-1
chr2_2 five_prime_UTR 70359607 70359651 70359607 ID=Msa0268670-mRNA-1:five_prime_utr;Parent=Msa0268670-mRNA-1
chr2_2 five_prime_UTR 70359680 70359717 70359680 ID=Msa0268670-mRNA-1:five_prime_utr;Parent=Msa0268670-mRNA-1
chr2_2 CDS 70359718 70359828 70359718 ID=Msa0268670-mRNA-1:cds;Parent=Msa0268670-mRNA-1
Gene Sequence

>Msa0268670

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa0268670

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI