Variant report

Variant	rs4775232
Chromosome Location	chr15:60310375-60310376
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11634171	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12595222	0.87[EUR][1000 genomes]
rs12898517	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12917568	0.87[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.89[GIH][hapmap];0.95[JPT][hapmap]
rs143831	0.90[ASN][1000 genomes]
rs17302895	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2414659	0.85[EUR][1000 genomes]
rs28630637	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4775233	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7166263	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7174372	0.88[ASN][1000 genomes]
rs7174491	0.81[ASN][1000 genomes]
rs8032252	0.93[CEU][hapmap];0.91[CHB][hapmap];0.85[JPT][hapmap]
rs8032588	0.93[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap]
rs8039361	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904280	chr15:60042722-60524025	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv833028	chr15:60227565-60418112	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1554	chr15:60273818-60313310	Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv569607	chr15:60303749-60347452	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats 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
rs4775232	RORA	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:60299000-60314400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr15:60306400-60314200	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr15:60309600-60310800	Enhancers	Dnd41	blood
4	chr15:60309800-60310400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr15:60309800-60310800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
6	chr15:60309800-60311000	Enhancers	HMEC	breast
7	chr15:60310000-60310400	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr15:60310000-60310600	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
9	chr15:60310200-60310400	Enhancers	Primary T helper naive cells from peripheral blood	blood
10	chr15:60310200-60310400	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr15:60310200-60310600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr15:60310200-60310600	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr15:60310200-60310600	Enhancers	NHEK	skin

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

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