AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0621800


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 8 sgRNAs with CRISPR-Local

Find 9 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGTGTTTCTCCCTCTTTA+GGG 0.270466 4_2:-74095925 None:intergenic
TGATGCTGCTGAAACTTCTC+TGG 0.426565 4_2:-74096000 None:intergenic
GGGAGAAACACAAAAGTAGA+AGG 0.433808 4_2:+74095934 Msa0621800:CDS
AAGGAAGAAGACAAAGGATG+AGG 0.516251 4_2:+74095953 Msa0621800:CDS
TGACTGAGGAAGCCCTAAAG+AGG 0.599684 4_2:+74095913 Msa0621800:CDS
GACTGAGGAAGCCCTAAAGA+GGG 0.617145 4_2:+74095914 Msa0621800:CDS
AAGTAGAAGGAAGAAGACAA+AGG 0.649388 4_2:+74095947 Msa0621800:CDS
GACTTACACTGATGTGACTG+AGG 0.669624 4_2:+74095899 Msa0621800:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTTGTGTTTCTCCCTCTTTA+GGG - chr4_2:74095928-74095947 None:intergenic 35.0%
! TTTTGTGTTTCTCCCTCTTT+AGG - chr4_2:74095929-74095948 None:intergenic 35.0%
AAGTAGAAGGAAGAAGACAA+AGG + chr4_2:74095947-74095966 Msa0621800:CDS 35.0%
GGGAGAAACACAAAAGTAGA+AGG + chr4_2:74095934-74095953 Msa0621800:CDS 40.0%
AAGGAAGAAGACAAAGGATG+AGG + chr4_2:74095953-74095972 Msa0621800:CDS 40.0%
GACTTACACTGATGTGACTG+AGG + chr4_2:74095899-74095918 Msa0621800:CDS 45.0%
TGATGCTGCTGAAACTTCTC+TGG - chr4_2:74096003-74096022 None:intergenic 45.0%
TGACTGAGGAAGCCCTAAAG+AGG + chr4_2:74095913-74095932 Msa0621800:CDS 50.0%
GACTGAGGAAGCCCTAAAGA+GGG + chr4_2:74095914-74095933 Msa0621800:CDS 50.0%
Chromosome Type Strat End Strand Name
chr4_2 gene 74095894 74096037 74095894 ID=Msa0621800;Name=Msa0621800
chr4_2 mRNA 74095894 74096037 74095894 ID=Msa0621800-mRNA-1;Parent=Msa0621800;Name=Msa0621800-mRNA-1;_AED=0.49;_eAED=0.51;_QI=0|-1|0|1|-1|1|1|0|47
chr4_2 exon 74095894 74096037 74095894 ID=Msa0621800-mRNA-1:exon:22320;Parent=Msa0621800-mRNA-1
chr4_2 CDS 74095894 74096037 74095894 ID=Msa0621800-mRNA-1:cds;Parent=Msa0621800-mRNA-1
Gene Sequence

>Msa0621800

ATGAAGACTTACACTGATGTGACTGAGGAAGCCCTAAAGAGGGAGAAACACAAAAGTAGAAGGAAGAAGACAAAGGATGAGGAAGAAGCTGCTAAAGCTGTTTGTTCCAGAGAAGTTTCAGCAGCATCATGTGTTTACTTGTAA

Protein sequence

>Msa0621800

MKTYTDVTEEALKREKHKSRRKKTKDEEEAAKAVCSREVSAASCVYL*