AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0829250


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0829250 MtrunA17_Chr3g0137561 99.187 123 1 0 1 123 87 209 3.85e-83 242
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0829250 AT4G32260.1 76.667 120 28 0 1 120 99 218 1.81e-49 157

Find 24 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAAGAAGCTCTTGCAAATT+TGG 0.138611 5_4:-2182001 Msa0829250:CDS
TTCCAACTCCTTCACTTCTT+CGG 0.354892 5_4:+2182155 None:intergenic
CACCCCTCTCGGAACCTTCA+TGG 0.382299 5_4:-2182229 Msa0829250:CDS
GAACCTTGTTAACAATATCT+TGG 0.384952 5_4:+2181923 None:intergenic
TTGAGATATCAACGAGAAAC+AGG 0.396683 5_4:+2181898 None:intergenic
TGCAAATTTGGAAAAGCAAA+AGG 0.407369 5_4:-2181989 Msa0829250:CDS
CGCAGCTCTCAAAACTGCAT+TGG 0.476740 5_4:+2182125 None:intergenic
CGCGTCACGATTGTCCATGA+AGG 0.481050 5_4:+2182215 None:intergenic
CTTCACTTCTTCGGATGTGT+TGG 0.483273 5_4:+2182164 None:intergenic
AAACTCTACTTCACCCCTCT+CGG 0.522559 5_4:-2182240 Msa0829250:CDS
TAGCCAAGATATTGTTAACA+AGG 0.566254 5_4:-2181926 Msa0829250:CDS
ATCCGAAGAAGTGAAGGAGT+TGG 0.580997 5_4:-2182157 Msa0829250:CDS
TGCGCGTGCTGAAATTGCGG+TGG 0.591536 5_4:-2182106 Msa0829250:CDS
AAGCGAAGATTGCGGAAGGT+AGG 0.592242 5_4:-2182044 Msa0829250:CDS
CAACACATCCGAAGAAGTGA+AGG 0.596455 5_4:-2182163 Msa0829250:CDS
AGCTGCGCGTGCTGAAATTG+CGG 0.598150 5_4:-2182109 Msa0829250:CDS
GTCCATGAAGGTTCCGAGAG+GGG 0.611279 5_4:+2182227 None:intergenic
TGTCCATGAAGGTTCCGAGA+GGG 0.615991 5_4:+2182226 None:intergenic
AATCGTGACGCGGAAATCAG+AGG 0.616507 5_4:-2182204 Msa0829250:CDS
GATTGCGGAAGGTAGGAAGA+AGG 0.621119 5_4:-2182037 Msa0829250:CDS
GTTGAAGCGAAGATTGCGGA+AGG 0.664257 5_4:-2182048 Msa0829250:CDS
TGAAGTTGAAGCGAAGATTG+CGG 0.692066 5_4:-2182052 Msa0829250:CDS
CTTCATGGACAATCGTGACG+CGG 0.701097 5_4:-2182214 Msa0829250:CDS
TTGTCCATGAAGGTTCCGAG+AGG 0.735316 5_4:+2182225 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGCAAATTTGGAAAAGCAAA+AGG - chr5_4:2182172-2182191 Msa0829250:CDS 30.0%
TAGCCAAGATATTGTTAACA+AGG - chr5_4:2182235-2182254 Msa0829250:CDS 30.0%
GAACCTTGTTAACAATATCT+TGG + chr5_4:2182241-2182260 None:intergenic 30.0%
TTCCAACTCCTTCACTTCTT+CGG + chr5_4:2182009-2182028 None:intergenic 40.0%
TGAAGTTGAAGCGAAGATTG+CGG - chr5_4:2182109-2182128 Msa0829250:CDS 40.0%
GCAAGAAGCTCTTGCAAATT+TGG - chr5_4:2182160-2182179 Msa0829250:CDS 40.0%
AAACTCTACTTCACCCCTCT+CGG - chr5_4:2181921-2181940 Msa0829250:CDS 45.0%
CTTCACTTCTTCGGATGTGT+TGG + chr5_4:2182000-2182019 None:intergenic 45.0%
CAACACATCCGAAGAAGTGA+AGG - chr5_4:2181998-2182017 Msa0829250:CDS 45.0%
ATCCGAAGAAGTGAAGGAGT+TGG - chr5_4:2182004-2182023 Msa0829250:CDS 45.0%
TGTCCATGAAGGTTCCGAGA+GGG + chr5_4:2181938-2181957 None:intergenic 50.0%
TTGTCCATGAAGGTTCCGAG+AGG + chr5_4:2181939-2181958 None:intergenic 50.0%
CTTCATGGACAATCGTGACG+CGG - chr5_4:2181947-2181966 Msa0829250:CDS 50.0%
AATCGTGACGCGGAAATCAG+AGG - chr5_4:2181957-2181976 Msa0829250:CDS 50.0%
CGCAGCTCTCAAAACTGCAT+TGG + chr5_4:2182039-2182058 None:intergenic 50.0%
GTTGAAGCGAAGATTGCGGA+AGG - chr5_4:2182113-2182132 Msa0829250:CDS 50.0%
AAGCGAAGATTGCGGAAGGT+AGG - chr5_4:2182117-2182136 Msa0829250:CDS 50.0%
GATTGCGGAAGGTAGGAAGA+AGG - chr5_4:2182124-2182143 Msa0829250:CDS 50.0%
GTCCATGAAGGTTCCGAGAG+GGG + chr5_4:2181937-2181956 None:intergenic 55.0%
CGCGTCACGATTGTCCATGA+AGG + chr5_4:2181949-2181968 None:intergenic 55.0%
AGCTGCGCGTGCTGAAATTG+CGG - chr5_4:2182052-2182071 Msa0829250:CDS 55.0%
CACCCCTCTCGGAACCTTCA+TGG - chr5_4:2181932-2181951 Msa0829250:CDS 60.0%
TGCGCGTGCTGAAATTGCGG+TGG - chr5_4:2182055-2182074 Msa0829250:CDS 60.0%
Chromosome Type Strat End Strand Name
chr5_4 gene 2181906 2182277 2181906 ID=Msa0829250;Name=Msa0829250
chr5_4 mRNA 2181906 2182277 2181906 ID=Msa0829250-mRNA-1;Parent=Msa0829250;Name=Msa0829250-mRNA-1;_AED=0.22;_eAED=0.22;_QI=0|-1|0|1|-1|1|1|0|123
chr5_4 exon 2181906 2182277 2181906 ID=Msa0829250-mRNA-1:exon:694;Parent=Msa0829250-mRNA-1
chr5_4 CDS 2181906 2182277 2181906 ID=Msa0829250-mRNA-1:cds;Parent=Msa0829250-mRNA-1
Gene Sequence

>Msa0829250

ATGTTCGCTCTCGACAAACTCTACTTCACCCCTCTCGGAACCTTCATGGACAATCGTGACGCGGAAATCAGAGGCAAACTCAACAGCGTCACCAACACATCCGAAGAAGTGAAGGAGTTGGAAGAACAAGCCAATGCAGTTTTGAGAGCTGCGCGTGCTGAAATTGCGGTGGCGCTGAATCAGATGAAGAAAGAGACTCAAGCTGAAGTTGAAGCGAAGATTGCGGAAGGTAGGAAGAAGGTTGATGCTGAATTGCAAGAAGCTCTTGCAAATTTGGAAAAGCAAAAGGAAGAAACTGTTAAAGCTCTTGATTCTCAGATTGCTGCTCTTAGCCAAGATATTGTTAACAAGGTTCTTCCTGTTTCTCGTTGA

Protein sequence

>Msa0829250

MFALDKLYFTPLGTFMDNRDAEIRGKLNSVTNTSEEVKELEEQANAVLRAARAEIAVALNQMKKETQAEVEAKIAEGRKKVDAELQEALANLEKQKEETVKALDSQIAALSQDIVNKVLPVSR*