AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0268880


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0268880 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa0268880 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0268880 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0268880 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
Msa0268880 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:+70428702 Msa0268880:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 2_2:+70428598 Msa0268880:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 2_2:-70428744 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 2_2:-70428692 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 2_2:+70428738 Msa0268880:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 2_2:+70428714 Msa0268880:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 2_2:+70428734 Msa0268880:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 2_2:-70428684 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 2_2:-70428610 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 2_2:-70428593 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 2_2:+70428614 Msa0268880:five_prime_UTR
ATATCGACGTGGTGATCAGT+TGG 0.572503 2_2:+70428785 Msa0268880:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 2_2:+70428752 Msa0268880:CDS
GCATATTTACAATATCGACG+TGG 0.789819 2_2:+70428774 Msa0268880:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG - chr2_2:70428695-70428714 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG + chr2_2:70428702-70428721 Msa0268880:CDS 25.0%
AATTGGCAATTGACATGATA+AGG - chr2_2:70428596-70428615 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG + chr2_2:70428637-70428656 Msa0268880:intron 30.0%
GGTAATATCTATCCTTCAAT+AGG - chr2_2:70428652-70428671 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG - chr2_2:70428675-70428694 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG - chr2_2:70428676-70428695 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG - chr2_2:70428687-70428706 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG + chr2_2:70428734-70428753 Msa0268880:CDS 30.0%
AATAATCCAGCCAAAGTAAT+AGG - chr2_2:70428747-70428766 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG + chr2_2:70428752-70428771 Msa0268880:CDS 30.0%
TCATGTCAATTGCCAATTCT+TGG + chr2_2:70428598-70428617 Msa0268880:five_prime_UTR 35.0%
GAATCTCAATGACCAAGAAT+TGG - chr2_2:70428613-70428632 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG + chr2_2:70428614-70428633 Msa0268880:five_prime_UTR 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG - chr2_2:70428673-70428692 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG - chr2_2:70428674-70428693 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG + chr2_2:70428714-70428733 Msa0268880:CDS 35.0%
CTAATTCCTATTACTTTGGC+TGG + chr2_2:70428738-70428757 Msa0268880:CDS 35.0%
GCATATTTACAATATCGACG+TGG + chr2_2:70428774-70428793 Msa0268880:CDS 35.0%
ATATCGACGTGGTGATCAGT+TGG + chr2_2:70428785-70428804 Msa0268880:CDS 45.0%
Chromosome Type Strat End Strand Name
chr2_2 gene 70428591 70428812 70428591 ID=Msa0268880;Name=Msa0268880
chr2_2 mRNA 70428591 70428812 70428591 ID=Msa0268880-mRNA-1;Parent=Msa0268880;Name=Msa0268880-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
chr2_2 exon 70428591 70428635 70428591 ID=Msa0268880-mRNA-1:exon:22700;Parent=Msa0268880-mRNA-1
chr2_2 exon 70428664 70428812 70428664 ID=Msa0268880-mRNA-1:exon:22701;Parent=Msa0268880-mRNA-1
chr2_2 five_prime_UTR 70428591 70428635 70428591 ID=Msa0268880-mRNA-1:five_prime_utr;Parent=Msa0268880-mRNA-1
chr2_2 five_prime_UTR 70428664 70428701 70428664 ID=Msa0268880-mRNA-1:five_prime_utr;Parent=Msa0268880-mRNA-1
chr2_2 CDS 70428702 70428812 70428702 ID=Msa0268880-mRNA-1:cds;Parent=Msa0268880-mRNA-1
Gene Sequence

>Msa0268880

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa0268880

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI