AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene073058

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073058.t1 MTR_3g109430 94.915 118 5 1 1 118 1 117 1.09e-72 212
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 24 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATCGACCAACTAAATATTT+AGG 0.285504 3.3:-90012324 None:intergenic
AAACAGTATGGCAGAAGATT+TGG 0.311355 3.3:+90012109 MS.gene073058:CDS
AACGAACGAGGGAGATTATC+TGG 0.376163 3.3:-90012264 None:intergenic
TTACCACCTAAATATTTAGT+TGG 0.429402 3.3:+90012318 MS.gene073058:CDS
CCATCTTCAACTATAGTAGA+AGG 0.451427 3.3:-90012177 None:intergenic
TTGCTACCATCATAGTTGCT+TGG 0.451500 3.3:-90012084 None:intergenic
CTCGGTATGCTGATCCATCT+TGG 0.452007 3.3:+90012292 MS.gene073058:CDS
GATATGAAGAAGTACATGTT+TGG 0.463772 3.3:+90011994 MS.gene073058:CDS
TCAAGAAGAGAAGCAAGGTT+AGG 0.500253 3.3:+90012018 MS.gene073058:CDS
TACTCAATGAACTTTGATCA+TGG 0.501867 3.3:+90012225 MS.gene073058:CDS
ATGAACTTTGATCATGGAGC+AGG 0.506680 3.3:+90012231 MS.gene073058:CDS
TCCCTCGTTCGTTCTCAGCT+CGG 0.509690 3.3:+90012274 MS.gene073058:CDS
CCTTCTACTATAGTTGAAGA+TGG 0.515448 3.3:+90012177 MS.gene073058:CDS
GAAGAGAAGCAAGGTTAGGT+AGG 0.539622 3.3:+90012022 MS.gene073058:CDS
TGATCATGGAGCAGGTTGGA+TGG 0.546024 3.3:+90012239 MS.gene073058:CDS
ATTTCACCAAGCAACTATGA+TGG 0.581383 3.3:+90012078 MS.gene073058:CDS
TTAGGTGGTAAGATCCAAGA+TGG 0.602511 3.3:-90012306 None:intergenic
CGACCAACTAAATATTTAGG+TGG 0.616235 3.3:-90012321 None:intergenic
TCAACTATAGTAGAAGGAGA+AGG 0.616257 3.3:-90012171 None:intergenic
TACCGAGCTGAGAACGAACG+AGG 0.628756 3.3:-90012276 None:intergenic
ACTTTGATCATGGAGCAGGT+TGG 0.656134 3.3:+90012235 MS.gene073058:CDS
AGGTAGGAGCTACACAACAA+AGG 0.677040 3.3:+90012038 MS.gene073058:CDS
TTGGCTCAAGAAGAGAAGCA+AGG 0.681319 3.3:+90012013 MS.gene073058:CDS
ACCGAGCTGAGAACGAACGA+GGG 0.691206 3.3:-90012275 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTACCACCTAAATATTTAGT+TGG + chr3.3:90012318-90012337 MS.gene073058:CDS 25.0%
ATGGTAGCAAAAAAACAGTA+TGG + chr3.3:90012097-90012116 MS.gene073058:CDS 30.0%
CATCGACCAACTAAATATTT+AGG - chr3.3:90012327-90012346 None:intergenic 30.0%
TACTCAATGAACTTTGATCA+TGG + chr3.3:90012225-90012244 MS.gene073058:CDS 30.0%
! GATATGAAGAAGTACATGTT+TGG + chr3.3:90011994-90012013 MS.gene073058:CDS 30.0%
AAACAGTATGGCAGAAGATT+TGG + chr3.3:90012109-90012128 MS.gene073058:CDS 35.0%
ATTTCACCAAGCAACTATGA+TGG + chr3.3:90012078-90012097 MS.gene073058:CDS 35.0%
CCATCTTCAACTATAGTAGA+AGG - chr3.3:90012180-90012199 None:intergenic 35.0%
CCTTCTACTATAGTTGAAGA+TGG + chr3.3:90012177-90012196 MS.gene073058:CDS 35.0%
CGACCAACTAAATATTTAGG+TGG - chr3.3:90012324-90012343 None:intergenic 35.0%
TCAACTATAGTAGAAGGAGA+AGG - chr3.3:90012174-90012193 None:intergenic 35.0%
ATGAACTTTGATCATGGAGC+AGG + chr3.3:90012231-90012250 MS.gene073058:CDS 40.0%
TCAAGAAGAGAAGCAAGGTT+AGG + chr3.3:90012018-90012037 MS.gene073058:CDS 40.0%
TTAGGTGGTAAGATCCAAGA+TGG - chr3.3:90012309-90012328 None:intergenic 40.0%
TTGCTACCATCATAGTTGCT+TGG - chr3.3:90012087-90012106 None:intergenic 40.0%
AACGAACGAGGGAGATTATC+TGG - chr3.3:90012267-90012286 None:intergenic 45.0%
ACTTTGATCATGGAGCAGGT+TGG + chr3.3:90012235-90012254 MS.gene073058:CDS 45.0%
AGGTAGGAGCTACACAACAA+AGG + chr3.3:90012038-90012057 MS.gene073058:CDS 45.0%
GAAGAGAAGCAAGGTTAGGT+AGG + chr3.3:90012022-90012041 MS.gene073058:CDS 45.0%
TTGGCTCAAGAAGAGAAGCA+AGG + chr3.3:90012013-90012032 MS.gene073058:CDS 45.0%
CTCGGTATGCTGATCCATCT+TGG + chr3.3:90012292-90012311 MS.gene073058:CDS 50.0%
! TGATCATGGAGCAGGTTGGA+TGG + chr3.3:90012239-90012258 MS.gene073058:CDS 50.0%
ACCGAGCTGAGAACGAACGA+GGG - chr3.3:90012278-90012297 None:intergenic 55.0%
TACCGAGCTGAGAACGAACG+AGG - chr3.3:90012279-90012298 None:intergenic 55.0%
TCCCTCGTTCGTTCTCAGCT+CGG + chr3.3:90012274-90012293 MS.gene073058:CDS 55.0%


Chromosome Type Strat End Strand Name
chr3.3 gene 90011991 90012347 90011991 ID=MS.gene073058
chr3.3 mRNA 90011991 90012347 90011991 ID=MS.gene073058.t1;Parent=MS.gene073058
chr3.3 exon 90011991 90012347 90011991 ID=MS.gene073058.t1.exon1;Parent=MS.gene073058.t1
chr3.3 CDS 90011991 90012347 90011991 ID=cds.MS.gene073058.t1;Parent=MS.gene073058.t1
Gene Sequence

>MS.gene073058

ATGGATATGAAGAAGTACATGTTTGGCTCAAGAAGAGAAGCAAGGTTAGGTAGGAGCTACACAACAAAGGCAAACTATCATAGCAATATTTCACCAAGCAACTATGATGGTAGCAAAAAAACAGTATGGCAGAAGATTTGGAGAAAGCTAAAAAGAGATAAGAAGAAAGTTTTCAATTCTCCTTCTCCTTCTACTATAGTTGAAGATGGTCATGTATCATATGATCAAGATACATACTCAATGAACTTTGATCATGGAGCAGGTTGGATGGAACCAGATAATCTCCCTCGTTCGTTCTCAGCTCGGTATGCTGATCCATCTTGGATCTTACCACCTAAATATTTAGTTGGTCGATGA
Protein sequence

>MS.gene073058.t1

MDMKKYMFGSRREARLGRSYTTKANYHSNISPSNYDGSKKTVWQKIWRKLKRDKKKVFNSPSPSTIVEDGHVSYDQDTYSMNFDHGAGWMEPDNLPRSFSARYADPSWILPPKYLVGR