Variant report

Variant	rs2596235
Chromosome Location	chr15:33732616-33732617
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs2596231	1.00[CEU][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2596232	0.87[EUR][1000 genomes]
rs2596237	0.85[GIH][hapmap];0.81[LWK][hapmap];0.80[MKK][hapmap];0.82[TSI][hapmap]
rs2596238	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2596240	0.81[GIH][hapmap]
rs2676021	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2676023	0.96[YRI][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs2676024	0.85[GIH][hapmap]
rs2676026	0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2676028	0.96[YRI][hapmap];0.89[AFR][1000 genomes]
rs2676029	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533346	chr15:33469439-33809641	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv832964	chr15:33608771-33784018	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv568919	chr15:33638335-33736683	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	n/a
4	nsv1043046	chr15:33714908-34321330	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	esv34041	chr15:33720726-33871487	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	esv34037	chr15:33732616-34049083	Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2596235	TRPM1	cis	parietal	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33717200-33733200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:33732400-33738800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr15:33732600-33732800	Bivalent Enhancer	Primary mononuclear cells fromperipheralblood	Blood
4	chr15:33732600-33732800	Enhancers	Aorta	Aorta
5	chr15:33732600-33733200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr15:33732600-33733200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr15:33732600-33733400	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr15:33732600-33734000	Enhancers	Primary hematopoietic stem cells	blood
9	chr15:33732600-33739600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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