AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene052519


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 12 sgRNAs with CRISPR-Local

Find 16 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACTTTACTGCCAGAGGAGT+TGG 0.419852 4.3:-23561666 MS.gene052519:CDS
CAAGGGAGGAAGAGAAATTA+CGG 0.439241 4.3:-23561515 MS.gene052519:CDS
GTACAGGTCTATATGATTTG+AGG 0.471177 4.3:+23561440 None:intergenic
TCCATGACATCCAACTCCTC+TGG 0.503135 4.3:+23561656 None:intergenic
GCCAGAGGAGTTGGATGTCA+TGG 0.505402 4.3:-23561657 MS.gene052519:CDS
GCGTGAGGATTTCAGTGACA+TGG 0.578706 4.3:-23561487 MS.gene052519:CDS
ATTCCAGGTATAATGAAGCA+AGG 0.588332 4.3:-23561533 MS.gene052519:intron
TTCCAGGTATAATGAAGCAA+GGG 0.612990 4.3:-23561532 MS.gene052519:intron
CAGGTATAATGAAGCAAGGG+AGG 0.616235 4.3:-23561529 MS.gene052519:CDS
GGATGTCACTTTACTGCCAG+AGG 0.626847 4.3:-23561672 MS.gene052519:CDS
TTTCAGTGACATGGTTGCTG+AGG 0.651024 4.3:-23561478 MS.gene052519:CDS
GAAATTACGGAGTCAGCGTG+AGG 0.668821 4.3:-23561502 MS.gene052519:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACGATGTTAACATCATTAAC+GGG + chr4.3:23561536-23561555 None:intergenic 30.0%
CACGATGTTAACATCATTAA+CGG + chr4.3:23561537-23561556 None:intergenic 30.0%
TATAAAACAGAAGTCATACC+TGG + chr4.3:23561502-23561521 None:intergenic 30.0%
ACATCTGCTAAAACTATTCC+AGG - chr4.3:23561570-23561589 MS.gene052519:intron 35.0%
ATTCCAGGTATAATGAAGCA+AGG - chr4.3:23561585-23561604 MS.gene052519:intron 35.0%
TTCCAGGTATAATGAAGCAA+GGG - chr4.3:23561586-23561605 MS.gene052519:intron 35.0%
CAAGGGAGGAAGAGAAATTA+CGG - chr4.3:23561603-23561622 MS.gene052519:intron 40.0%
! TGGAGAACGTTTTACATACC+AGG - chr4.3:23561481-23561500 MS.gene052519:CDS 40.0%
CAGGTATAATGAAGCAAGGG+AGG - chr4.3:23561589-23561608 MS.gene052519:intron 45.0%
CTCCCTTGCTTCATTATACC+TGG + chr4.3:23561591-23561610 None:intergenic 45.0%
TTTCAGTGACATGGTTGCTG+AGG - chr4.3:23561640-23561659 MS.gene052519:CDS 45.0%
CACTTTACTGCCAGAGGAGT+TGG - chr4.3:23561452-23561471 MS.gene052519:CDS 50.0%
GAAATTACGGAGTCAGCGTG+AGG - chr4.3:23561616-23561635 MS.gene052519:intron 50.0%
GCGTGAGGATTTCAGTGACA+TGG - chr4.3:23561631-23561650 MS.gene052519:intron 50.0%
TCCATGACATCCAACTCCTC+TGG + chr4.3:23561465-23561484 None:intergenic 50.0%
GCCAGAGGAGTTGGATGTCA+TGG - chr4.3:23561461-23561480 MS.gene052519:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 23561448 23561692 23561448 ID=MS.gene052519
chr4.3 mRNA 23561448 23561692 23561448 ID=MS.gene052519.t1;Parent=MS.gene052519
chr4.3 exon 23561638 23561692 23561638 ID=MS.gene052519.t1.exon1;Parent=MS.gene052519.t1
chr4.3 CDS 23561638 23561692 23561638 ID=cds.MS.gene052519.t1;Parent=MS.gene052519.t1
chr4.3 exon 23561448 23561548 23561448 ID=MS.gene052519.t1.exon2;Parent=MS.gene052519.t1
chr4.3 CDS 23561448 23561548 23561448 ID=cds.MS.gene052519.t1;Parent=MS.gene052519.t1
Gene Sequence

>MS.gene052519

ATGTCACTTTACTGCCAGAGGAGTTGGATGTCATGGAGAACGTTTTACATACCAGGTATGACTTCTGTTTTATATGTTTTGTTTGCCCGTTAATGATGTTAACATCGTGTATCTTGTTTCTTACATCTGCTAAAACTATTCCAGGTATAATGAAGCAAGGGAGGAAGAGAAATTACGGAGTCAGCGTGAGGATTTCAGTGACATGGTTGCTGAGGTGTGTTGCATTCAATCCTCAAATCATATAG

Protein sequence

>MS.gene052519.t1

MSLYCQRSWMSWRTFYIPGIMKQGRKRNYGVSVRISVTWLLRCVAFNPQII