AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0268350


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0268350 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa0268350 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0268350 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0268350 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
Msa0268350 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:-70199805 Msa0268350:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 2_2:-70199909 Msa0268350:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 2_2:+70199763 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 2_2:+70199815 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 2_2:-70199769 Msa0268350:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 2_2:-70199793 Msa0268350:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 2_2:-70199773 Msa0268350:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 2_2:+70199823 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 2_2:+70199897 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 2_2:+70199914 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 2_2:-70199893 Msa0268350:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 2_2:-70199722 Msa0268350:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 2_2:-70199755 Msa0268350:CDS
GCATATTTACAATATCGACG+TGG 0.789819 2_2:-70199733 Msa0268350:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + chr2_2:70199821-70199840 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - chr2_2:70199828-70199847 Msa0268350:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + chr2_2:70199722-70199741 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - chr2_2:70199763-70199782 Msa0268350:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + chr2_2:70199778-70199797 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + chr2_2:70199801-70199820 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + chr2_2:70199802-70199821 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + chr2_2:70199813-70199832 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - chr2_2:70199860-70199879 Msa0268350:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + chr2_2:70199873-70199892 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - chr2_2:70199878-70199897 Msa0268350:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - chr2_2:70199724-70199743 Msa0268350:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + chr2_2:70199739-70199758 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - chr2_2:70199740-70199759 Msa0268350:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + chr2_2:70199799-70199818 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + chr2_2:70199800-70199819 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - chr2_2:70199840-70199859 Msa0268350:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - chr2_2:70199864-70199883 Msa0268350:intron 35.0%
GCATATTTACAATATCGACG+TGG - chr2_2:70199900-70199919 Msa0268350:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - chr2_2:70199911-70199930 Msa0268350:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
chr2_2 gene 70199717 70199938 70199717 ID=Msa0268350;Name=Msa0268350
chr2_2 mRNA 70199717 70199938 70199717 ID=Msa0268350-mRNA-1;Parent=Msa0268350;Name=Msa0268350-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
chr2_2 exon 70199894 70199938 70199894 ID=Msa0268350-mRNA-1:exon:22555;Parent=Msa0268350-mRNA-1
chr2_2 exon 70199717 70199865 70199717 ID=Msa0268350-mRNA-1:exon:22554;Parent=Msa0268350-mRNA-1
chr2_2 five_prime_UTR 70199894 70199938 70199894 ID=Msa0268350-mRNA-1:five_prime_utr;Parent=Msa0268350-mRNA-1
chr2_2 five_prime_UTR 70199828 70199865 70199828 ID=Msa0268350-mRNA-1:five_prime_utr;Parent=Msa0268350-mRNA-1
chr2_2 CDS 70199717 70199827 70199717 ID=Msa0268350-mRNA-1:cds;Parent=Msa0268350-mRNA-1
Gene Sequence

>Msa0268350

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa0268350

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI