Variant report

Variant	rs12913501
Chromosome Location	chr15:83581187-83581188
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 5 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs17294476	0.86[CEU][hapmap];0.83[AMR][1000 genomes]
rs35522893	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72755921	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7496832	0.87[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040336	chr15:83578947-83768335	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12913501	HDGFRP3	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:83568200-83585400	Weak transcription	Fetal Muscle Trunk	muscle
2	chr15:83570400-83591600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr15:83573600-83582000	Weak transcription	Psoas Muscle	Psoas
4	chr15:83578000-83585200	Weak transcription	Left Ventricle	heart
5	chr15:83579800-83581400	Weak transcription	Pancreas	Pancrea
6	chr15:83580000-83581600	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr15:83580200-83581400	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr15:83580200-83581600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links