Variant report

Variant	rs9806234
Chromosome Location	chr15:74663033-74663034
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	POLR2A	chr15:74662963-74663424	Hela-S3	cervix:	n/a	n/a
2	POLR2A	chr15:74662536-74663784	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:74662886..74664620-chr15:74666174..74668404,2	MCF-7	breast:
2	chr15:74661188..74664135-chr15:74906547..74909297,3	MCF-7	breast:
3	chr15:74661132..74663482-chr15:74724672..74726267,2	K562	blood:
4	chr15:74662112..74663737-chr15:74896911..74899028,2	MCF-7	breast:

Variant related genes	Relation type
CYP11A1	TF binding region
ENSG00000138623	Chromatin interaction
ENSG00000260919	Chromatin interaction
ENSG00000179335	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs12914852	0.84[AFR][1000 genomes]
rs12916765	0.83[AFR][1000 genomes]
rs4887142	0.89[CHB][hapmap]
rs56339065	0.86[AFR][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	nsv428641	chr15:74555113-74724630	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
2	nsv482615	chr15:74593625-74757962	Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	58 gene(s)	inside rSNPs	diseases
3	nsv904351	chr15:74638965-74697084	Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv904352	chr15:74638965-74715205	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9806234	SEMA7A	cis	cerebellum	SCAN
rs9806234	NRG4	cis	parietal	SCAN
rs9806234	MPI	cis	cerebellum	SCAN

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74658600-74665800	Weak transcription	Pancreas	Pancrea
2	chr15:74658600-74666200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr15:74658800-74664000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr15:74658800-74665800	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr15:74658800-74666000	Weak transcription	Esophagus	oesophagus
6	chr15:74658800-74666200	Weak transcription	Right Atrium	heart
7	chr15:74659400-74666200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr15:74659800-74665400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr15:74659800-74666000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr15:74660000-74665600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr15:74660200-74665600	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr15:74660200-74665800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:74660400-74665400	Weak transcription	Spleen	Spleen
14	chr15:74660400-74665800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr15:74661800-74665800	Weak transcription	Fetal Heart	heart
16	chr15:74662000-74664600	Weak transcription	Placenta	Placenta
17	chr15:74662000-74665800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
18	chr15:74662200-74663800	Weak transcription	Osteobl	bone
19	chr15:74662200-74665800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr15:74662200-74665800	Weak transcription	Adipose Nuclei	Adipose
21	chr15:74662200-74666200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr15:74662200-74666200	Weak transcription	Ovary	ovary
23	chr15:74663000-74663200	Enhancers	iPS-18 Cell Line	embryonic stem cell
24	chr15:74663000-74663600	Strong transcription	Hela-S3	cervix

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