Variant report

Variant	rs2574876
Chromosome Location	chr1:224987155-224987156
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs12097622	0.81[EUR][1000 genomes]
rs1316512	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1361923	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1436166	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1892121	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1936632	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2016652	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2252950	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2298257	0.87[JPT][hapmap]
rs2501078	0.82[JPT][hapmap]
rs2574874	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2574877	0.86[ASN][1000 genomes]
rs2662907	0.86[ASN][1000 genomes]
rs2662924	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2662925	0.88[ASN][1000 genomes]
rs2662927	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2662929	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2802552	0.88[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2802556	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2802558	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2802559	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2802562	0.91[CHB][hapmap];0.85[JPT][hapmap];0.86[ASN][1000 genomes]
rs2802563	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2802744	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2997478	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2997501	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3012182	0.86[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs3012184	0.86[ASN][1000 genomes]
rs56237431	0.81[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	nsv524125	chr1:224902054-225021860	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv1804780	chr1:224987113-224996034	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
3	esv1811601	chr1:224987113-224996370	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv1812046	chr1:224987113-224996370	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:224980600-224988200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr1:224981200-224989600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr1:224981400-224988200	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr1:224986600-224987200	Enhancers	H9 Cell Line	embryonic stem cell
5	chr1:224986800-224987200	Enhancers	NH-A	brain
6	chr1:224987000-224987200	Enhancers	H1 Cell Line	embryonic stem cell
7	chr1:224987000-224988200	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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