AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene99740

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99740.t1 MTR_4g093620 88.660 97 11 0 1 97 37 133 1.02e-48 159
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99740.t1 AT5G64380 59.459 74 24 2 30 97 66 139 1.03e-20 85.5

Find 18 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATATAATATCAAGAGGCTT+TGG 0.358265 1.2:-83885282 None:intergenic
ATGAGTAAGGGAGGAGGAAT+TGG 0.362459 1.2:+83885132 MS.gene99740:CDS
AATTGGTGTGAATGATGATT+TGG 0.368027 1.2:+83885149 MS.gene99740:CDS
ACCTAAGTAGTGGTTCTGAT+AGG 0.404178 1.2:+83885253 MS.gene99740:CDS
ATTGATGGAGTATATGAGTA+AGG 0.434784 1.2:+83885119 MS.gene99740:CDS
TCAGCAGTAGCAAGTGATGA+TGG 0.472060 1.2:+83885087 MS.gene99740:CDS
GAATTATCCAAGGTGTATAG+TGG 0.476961 1.2:-83885051 None:intergenic
GAGTATATGAGTAAGGGAGG+AGG 0.514509 1.2:+83885126 MS.gene99740:CDS
CCTAAGTAGTGGTTCTGATA+GGG 0.516324 1.2:+83885254 MS.gene99740:CDS
TGATGGGTCTGTTACATTGA+TGG 0.523388 1.2:+83885104 MS.gene99740:CDS
ATGGAGTATATGAGTAAGGG+AGG 0.531000 1.2:+83885123 MS.gene99740:CDS
CCCTATCAGAACCACTACTT+AGG 0.554532 1.2:-83885254 None:intergenic
CACTTTGATATAATATCAAG+AGG 0.568257 1.2:-83885288 None:intergenic
TTGATGGAGTATATGAGTAA+GGG 0.571590 1.2:+83885120 MS.gene99740:CDS
CAGCAGTAGCAAGTGATGAT+GGG 0.581365 1.2:+83885088 MS.gene99740:CDS
AGTAAAACCACTATACACCT+TGG 0.582928 1.2:+83885044 MS.gene99740:CDS
AGCATTGATAACCTAAGTAG+TGG 0.596762 1.2:+83885243 MS.gene99740:CDS
AGATGAAGAAGAATTATCCA+AGG 0.665668 1.2:-83885061 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CACTTTGATATAATATCAAG+AGG - chr1.2:83885291-83885310 None:intergenic 25.0%
AATTGGTGTGAATGATGATT+TGG + chr1.2:83885149-83885168 MS.gene99740:CDS 30.0%
AGATGAAGAAGAATTATCCA+AGG - chr1.2:83885064-83885083 None:intergenic 30.0%
ATTGATGGAGTATATGAGTA+AGG + chr1.2:83885119-83885138 MS.gene99740:CDS 30.0%
GATATAATATCAAGAGGCTT+TGG - chr1.2:83885285-83885304 None:intergenic 30.0%
TTGATGGAGTATATGAGTAA+GGG + chr1.2:83885120-83885139 MS.gene99740:CDS 30.0%
AGTAAAACCACTATACACCT+TGG + chr1.2:83885044-83885063 MS.gene99740:CDS 35.0%
GAATTATCCAAGGTGTATAG+TGG - chr1.2:83885054-83885073 None:intergenic 35.0%
!! AGCATTGATAACCTAAGTAG+TGG + chr1.2:83885243-83885262 MS.gene99740:CDS 35.0%
ATGGAGTATATGAGTAAGGG+AGG + chr1.2:83885123-83885142 MS.gene99740:CDS 40.0%
! TGATGGGTCTGTTACATTGA+TGG + chr1.2:83885104-83885123 MS.gene99740:CDS 40.0%
!! ACCTAAGTAGTGGTTCTGAT+AGG + chr1.2:83885253-83885272 MS.gene99740:CDS 40.0%
!! CCTAAGTAGTGGTTCTGATA+GGG + chr1.2:83885254-83885273 MS.gene99740:CDS 40.0%
ATGAGTAAGGGAGGAGGAAT+TGG + chr1.2:83885132-83885151 MS.gene99740:CDS 45.0%
CAGCAGTAGCAAGTGATGAT+GGG + chr1.2:83885088-83885107 MS.gene99740:CDS 45.0%
CCCTATCAGAACCACTACTT+AGG - chr1.2:83885257-83885276 None:intergenic 45.0%
GAGTATATGAGTAAGGGAGG+AGG + chr1.2:83885126-83885145 MS.gene99740:CDS 45.0%
TCAGCAGTAGCAAGTGATGA+TGG + chr1.2:83885087-83885106 MS.gene99740:CDS 45.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 83885015 83885344 83885015 ID=MS.gene99740
chr1.2 mRNA 83885015 83885344 83885015 ID=MS.gene99740.t1;Parent=MS.gene99740
chr1.2 exon 83885015 83885344 83885015 ID=MS.gene99740.t1.exon1;Parent=MS.gene99740.t1
chr1.2 CDS 83885015 83885344 83885015 ID=cds.MS.gene99740.t1;Parent=MS.gene99740.t1
Gene Sequence

>MS.gene99740

ATGGCTTCAGTTTCTGAGTTCAGAACAAGAGTAAAACCACTATACACCTTGGATAATTCTTCTTCATCTTCATCAGCAGTAGCAAGTGATGATGGGTCTGTTACATTGATGGAGTATATGAGTAAGGGAGGAGGAATTGGTGTGAATGATGATTTGGTGATTTTGATTGATCATATACAGTATGCTTGCAAGAGAATTGCAGCTCTTATAGCTTCTCTTTTCAATTATAGCATTGATAACCTAAGTAGTGGTTCTGATAGGGATGCTCCAAAGCCTCTTGATATTATATCAAAGTGTTTTTATTCTCTTGAATTTTATGAGTTTCGATGA
Protein sequence

>MS.gene99740.t1

MASVSEFRTRVKPLYTLDNSSSSSSAVASDDGSVTLMEYMSKGGGIGVNDDLVILIDHIQYACKRIAALIASLFNYSIDNLSSGSDRDAPKPLDIISKCFYSLEFYEFR