AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene47022

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene47022.t1 MTR_1g036690 58.537 82 27 3 19 99 5 80 2.63e-25 90.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 15 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACTTCAAAATAAGGATAAA+AGG 0.234592 5.1:+69620586 MS.gene47022:CDS
CCAACAATCACTTCAAAATA+AGG 0.244294 5.1:+69620578 MS.gene47022:CDS
TAAAGATCAACAAGATGTTT+TGG 0.333763 5.1:-69620555 None:intergenic
TATAGGTGGTGTTCTATTCC+TGG 0.336273 5.1:-69620740 None:intergenic
TGAAGATGATTATGGTAATA+TGG 0.338642 5.1:+69620638 MS.gene47022:CDS
GAAAATGATGAAGATGATTA+TGG 0.394855 5.1:+69620630 MS.gene47022:CDS
TGCTATCGTTGTGGAGGAAA+AGG 0.414829 5.1:+69620507 MS.gene47022:CDS
AGAAATCAGCAGCATCTAAG+TGG 0.464577 5.1:-69620668 None:intergenic
AATGTTGTAAAGAATGATAT+TGG 0.471241 5.1:+69620456 MS.gene47022:CDS
ACTTCAAAATAAGGATAAAA+GGG 0.487291 5.1:+69620587 MS.gene47022:CDS
GTTGTGGAGGAAAAGGTCAT+TGG 0.504176 5.1:+69620514 MS.gene47022:CDS
CATTAGAGATGAAAATATCC+AGG 0.532865 5.1:+69620722 MS.gene47022:CDS
GAGAGTATTTGCTATCGTTG+TGG 0.583351 5.1:+69620498 MS.gene47022:CDS
AGTATTTGCTATCGTTGTGG+AGG 0.599695 5.1:+69620501 MS.gene47022:CDS
GAAATCAGCAGCATCTAAGT+GGG 0.621669 5.1:-69620667 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGTTGTAAAGAATGATAT+TGG + chr5.1:69620456-69620475 MS.gene47022:CDS 20.0%
!! ACTTCAAAATAAGGATAAAA+GGG + chr5.1:69620587-69620606 MS.gene47022:CDS 20.0%
! CACTTCAAAATAAGGATAAA+AGG + chr5.1:69620586-69620605 MS.gene47022:CDS 25.0%
! GAAAATGATGAAGATGATTA+TGG + chr5.1:69620630-69620649 MS.gene47022:CDS 25.0%
! TGAAGATGATTATGGTAATA+TGG + chr5.1:69620638-69620657 MS.gene47022:CDS 25.0%
!! ATCATTTTCACATGCAAAAT+GGG - chr5.1:69620619-69620638 None:intergenic 25.0%
!! TAAAGATCAACAAGATGTTT+TGG - chr5.1:69620558-69620577 None:intergenic 25.0%
CATTAGAGATGAAAATATCC+AGG + chr5.1:69620722-69620741 MS.gene47022:CDS 30.0%
CCAACAATCACTTCAAAATA+AGG + chr5.1:69620578-69620597 MS.gene47022:CDS 30.0%
! AGATGATCAATCTTTTCATC+AGG - chr5.1:69620702-69620721 None:intergenic 30.0%
! CATCATTTTCACATGCAAAA+TGG - chr5.1:69620620-69620639 None:intergenic 30.0%
!!! CCTTATTTTGAAGTGATTGT+TGG - chr5.1:69620581-69620600 None:intergenic 30.0%
AGAAATCAGCAGCATCTAAG+TGG - chr5.1:69620671-69620690 None:intergenic 40.0%
GAAATCAGCAGCATCTAAGT+GGG - chr5.1:69620670-69620689 None:intergenic 40.0%
!! AGTATTTGCTATCGTTGTGG+AGG + chr5.1:69620501-69620520 MS.gene47022:CDS 40.0%
!! GAGAGTATTTGCTATCGTTG+TGG + chr5.1:69620498-69620517 MS.gene47022:CDS 40.0%
GTTGTGGAGGAAAAGGTCAT+TGG + chr5.1:69620514-69620533 MS.gene47022:CDS 45.0%
TGCTATCGTTGTGGAGGAAA+AGG + chr5.1:69620507-69620526 MS.gene47022:CDS 45.0%
!!! AAGATGTTTTGGCGTACGAC+AGG - chr5.1:69620547-69620566 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 69620450 69620749 69620450 ID=MS.gene47022
chr5.1 mRNA 69620450 69620749 69620450 ID=MS.gene47022.t1;Parent=MS.gene47022
chr5.1 exon 69620450 69620749 69620450 ID=MS.gene47022.t1.exon1;Parent=MS.gene47022.t1
chr5.1 CDS 69620450 69620749 69620450 ID=cds.MS.gene47022.t1;Parent=MS.gene47022.t1
Gene Sequence

>MS.gene47022

ATGAAAAATGTTGTAAAGAATGATATTGGTCAAAGCAGCAAAAGTAATGAGAGTATTTGCTATCGTTGTGGAGGAAAAGGTCATTGGAGTCGTACCTGTCGTACGCCAAAACATCTTGTTGATCTTTACCAACAATCACTTCAAAATAAGGATAAAAGGGCTGAAACCCATTTTGCATGTGAAAATGATGAAGATGATTATGGTAATATGGAAAGTACCCACTTAGATGCTGCTGATTTCTTTGTTGATCCTGATGAAAAGATTGATCATCTCATTAGAGATGAAAATATCCAGGAATAG
Protein sequence

>MS.gene47022.t1

MKNVVKNDIGQSSKSNESICYRCGGKGHWSRTCRTPKHLVDLYQQSLQNKDKRAETHFACENDEDDYGNMESTHLDAADFFVDPDEKIDHLIRDENIQE