Variant report

Variant	rs17171532
Chromosome Location	chr7:39124426-39124427
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOXA1	chr7:39123962-39124427	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
POU6F2	TF binding region

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10085472	0.83[CHD][hapmap]
rs10499612	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10951591	1.00[EUR][1000 genomes]
rs10951592	1.00[EUR][1000 genomes]
rs11972970	1.00[CEU][hapmap]
rs11976952	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs12535553	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17171485	0.81[TSI][hapmap]
rs17171531	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2177798	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs2893569	1.00[CEU][hapmap]
rs4376417	0.81[TSI][hapmap]
rs4507665	0.81[TSI][hapmap]
rs6948756	0.87[EUR][1000 genomes]
rs7779586	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap]
rs7802955	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024142	chr7:38978728-39300444	Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv887968	chr7:39123165-39198960	Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39115600-39125200	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr7:39122600-39125000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr7:39122800-39125000	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr7:39123200-39124800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr7:39123200-39125000	Enhancers	Fetal Brain Male	brain
6	chr7:39123600-39125000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr7:39123800-39126600	Active TSS	Pancreatic Islets	Pancreatic Islet
8	chr7:39124000-39124800	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr7:39124000-39125000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr7:39124200-39124600	Enhancers	Fetal Brain Female	brain
11	chr7:39124200-39125000	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr7:39124400-39124600	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr7:39124400-39124600	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
14	chr7:39124400-39124600	Active TSS	Brain Inferior Temporal Lobe	brain
15	chr7:39124400-39124800	Enhancers	HUES64 Cell Line	embryonic stem cell
16	chr7:39124400-39124800	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
17	chr7:39124400-39125000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr7:39124400-39125200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr7:39124400-39125200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr7:39124400-39125800	Active TSS	Brain Cingulate Gyrus	brain

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