Variant report

Variant	rs9835431
Chromosome Location	chr3:111846351-111846352
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11711153	0.88[YRI][hapmap]
rs11714273	0.80[GIH][hapmap]
rs11715536	0.95[YRI][hapmap]
rs11719485	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12494678	0.80[CEU][hapmap]
rs13314268	0.86[CEU][hapmap];0.93[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13314977	0.85[GIH][hapmap]
rs1492482	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1492487	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1602671	0.85[AFR][1000 genomes]
rs1844995	0.88[YRI][hapmap]
rs2029636	0.85[GIH][hapmap];0.82[LWK][hapmap];0.96[YRI][hapmap]
rs2029637	0.96[YRI][hapmap]
rs2046983	0.85[GIH][hapmap];0.82[YRI][hapmap]
rs2087768	0.83[AFR][1000 genomes]
rs2131232	0.84[ASW][hapmap];0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2172314	0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2172315	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2399405	0.85[AFR][1000 genomes]
rs4568110	0.85[GIH][hapmap];0.88[YRI][hapmap]
rs4682365	0.85[GIH][hapmap];0.82[LWK][hapmap];0.80[MKK][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs4682379	0.88[YRI][hapmap]
rs4682391	0.80[CEU][hapmap]
rs62277462	0.82[AFR][1000 genomes]
rs6438057	0.85[GIH][hapmap];0.88[YRI][hapmap]
rs6766122	0.85[GIH][hapmap];0.88[YRI][hapmap]
rs6766622	0.81[AFR][1000 genomes]
rs6767017	0.85[AFR][1000 genomes]
rs6768523	0.85[GIH][hapmap];0.82[LWK][hapmap];0.82[MKK][hapmap];0.88[YRI][hapmap]
rs6773161	0.85[GIH][hapmap];0.82[LWK][hapmap];0.82[MKK][hapmap];0.88[YRI][hapmap]
rs6791042	0.85[AFR][1000 genomes]
rs6805795	0.80[CHB][hapmap]
rs6807950	0.85[GIH][hapmap]
rs6808920	0.85[GIH][hapmap];0.82[LWK][hapmap];0.80[MKK][hapmap];1.00[YRI][hapmap]
rs7616020	0.85[GIH][hapmap];0.82[LWK][hapmap];1.00[YRI][hapmap]
rs7622733	0.85[GIH][hapmap];0.82[LWK][hapmap];0.80[MKK][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs7642447	0.85[GIH][hapmap];0.88[YRI][hapmap]
rs7642496	0.85[GIH][hapmap];0.88[YRI][hapmap]
rs9288938	0.85[GIH][hapmap];0.82[LWK][hapmap];0.96[YRI][hapmap]
rs9288943	0.82[CHB][hapmap]
rs9821935	0.85[GIH][hapmap];0.82[LWK][hapmap];0.96[YRI][hapmap]
rs9828502	0.85[GIH][hapmap]
rs9871650	0.85[GIH][hapmap];0.82[LWK][hapmap];0.96[YRI][hapmap]
rs9872691	0.85[GIH][hapmap];0.88[YRI][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9835431	TMPRSS7	cis	brain	BrainEAC
rs9835431	CCDC80	cis	cerebellum	SCAN

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111810400-111852000	Weak transcription	Esophagus	oesophagus
2	chr3:111812200-111853000	Weak transcription	Right Ventricle	heart
3	chr3:111819600-111847800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:111830600-111853200	Weak transcription	Lung	lung
5	chr3:111834200-111853800	Weak transcription	Fetal Intestine Small	intestine
6	chr3:111834400-111848000	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr3:111835800-111849600	Weak transcription	Small Intestine	intestine
8	chr3:111836200-111849200	Weak transcription	Aorta	Aorta
9	chr3:111836600-111846400	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr3:111839000-111853000	Weak transcription	Left Ventricle	heart
11	chr3:111839600-111847400	Weak transcription	HMEC	breast
12	chr3:111840800-111847000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:111840800-111849200	Weak transcription	Gastric	stomach
14	chr3:111840800-111855800	Weak transcription	NH-A	brain
15	chr3:111841000-111846600	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr3:111842600-111846400	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr3:111842800-111849200	Weak transcription	Pancreas	Pancrea
18	chr3:111843600-111847000	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr3:111843600-111848400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr3:111843600-111848400	Enhancers	iPS-20b Cell Line	embryonic stem cell
21	chr3:111843600-111849200	Enhancers	ES-I3 Cell Line	embryonic stem cell
22	chr3:111843600-111849800	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
23	chr3:111843800-111846800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
24	chr3:111843800-111848400	Enhancers	iPS-15b Cell Line	embryonic stem cell
25	chr3:111843800-111849000	Enhancers	HUES6 Cell Line	embryonic stem cell
26	chr3:111843800-111849200	Enhancers	Primary hematopoietic stem cells	blood
27	chr3:111844000-111847000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr3:111844000-111847800	Enhancers	Fetal Kidney	kidney
29	chr3:111844000-111848600	Enhancers	iPS-18 Cell Line	embryonic stem cell
30	chr3:111844000-111848800	Enhancers	HUES64 Cell Line	embryonic stem cell
31	chr3:111844400-111847200	Enhancers	Fetal Heart	heart
32	chr3:111844400-111850000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
33	chr3:111844600-111846400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr3:111844800-111848800	Enhancers	Primary hematopoietic stem cells short term culture	blood
35	chr3:111844800-111855800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr3:111845000-111846400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
37	chr3:111845000-111847000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr3:111845000-111851000	Enhancers	Primary B cells from peripheral blood	blood
39	chr3:111845200-111846400	Enhancers	Duodenum Smooth Muscle	Duodenum
40	chr3:111845200-111847000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
41	chr3:111845200-111847000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
42	chr3:111845200-111847400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
43	chr3:111845400-111847000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
44	chr3:111845400-111847200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
45	chr3:111845400-111848600	Enhancers	Primary monocytes fromperipheralblood	blood
46	chr3:111845600-111846400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr3:111845600-111846400	Enhancers	Duodenum Mucosa	Duodenum
48	chr3:111845600-111846400	Enhancers	Thymus	Thymus
49	chr3:111845600-111846600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr3:111845600-111846800	Enhancers	Adipose Nuclei	Adipose

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