Variant report

Variant	rs7434187
Chromosome Location	chr3:49032967-49032968
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:49026902..49029437-chr3:49031903..49033924,2	K562	blood:

Variant related genes	Relation type
ENSG00000178467	Chromatin interaction
ENSG00000223343	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 35 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs11130181	0.86[EUR][1000 genomes]
rs11130183	0.82[CEU][hapmap]
rs11707968	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12715430	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13099075	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3087866	0.84[ASW][hapmap];0.91[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.93[TSI][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4292260	0.95[CEU][hapmap];1.00[GIH][hapmap];0.90[TSI][hapmap]
rs4955411	0.95[CEU][hapmap];1.00[GIH][hapmap];0.90[TSI][hapmap]
rs4955416	1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes]
rs4955426	0.95[CEU][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];0.96[TSI][hapmap]
rs4974081	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.96[TSI][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4974083	1.00[CEU][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4974088	1.00[CEU][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs62259536	0.85[EUR][1000 genomes]
rs6414614	0.93[EUR][1000 genomes]
rs6446200	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6446204	1.00[CEU][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446247	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6446256	0.85[CEU][hapmap]
rs6772452	1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6780307	1.00[YRI][hapmap]
rs6787804	1.00[YRI][hapmap]
rs6787808	1.00[CEU][hapmap]
rs6798112	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7100	0.84[ASW][hapmap];0.91[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.93[TSI][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7372883	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7373072	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs7429661	0.82[CEU][hapmap]
rs7621226	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7621347	0.87[EUR][1000 genomes]
rs7653408	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.96[TSI][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9284885	1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[TSI][hapmap];0.83[EUR][1000 genomes]
rs9311431	1.00[CEU][hapmap]
rs9810318	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9834003	0.82[CEU][hapmap]
rs9859473	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.93[TSI][hapmap]
rs9864243	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap];0.96[TSI][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9865051	0.84[ASW][hapmap];0.95[CEU][hapmap];0.88[MEX][hapmap];0.93[TSI][hapmap]
rs9879978	1.00[CEU][hapmap]

mRNA abundance (count:35)

SNP	Gene	Cis/trans	Tissue	Source
rs7434187	AMT	cis	Artery Tibial	GTEx
rs7434187	AMT	cis	Thyroid	GTEx
rs7434187	NICN1-AS1	cis	Thyroid	GTEx
rs7434187	IQCF1	cis	cerebellum	SCAN
rs7434187	DALRD3	cis	cerebellum	SCAN
rs7434187	WDR6	cis	parietal	SCAN
rs7434187	AMT	cis	Whole Blood	GTEx
rs7434187	NCKIPSD	cis	parietal	SCAN
rs7434187	NICN1	cis	Thyroid	GTEx
rs7434187	PHF7	cis	parietal	SCAN
rs7434187	GPX1	cis	parietal	SCAN
rs7434187	AMT	cis	Esophagus Mucosa	GTEx
rs7434187	ZNF589	cis	parietal	SCAN
rs7434187	WDR6	cis	cerebellum	SCAN
rs7434187	AMT	cis	parietal	SCAN
rs7434187	ARIH2	cis	Thyroid	GTEx
rs7434187	AMT	cis	Adipose Subcutaneous	GTEx
rs7434187	DALRD3	cis	parietal	SCAN
rs7434187	PH-4	Cis_1M	lymphoblastoid	RTeQTL
rs7434187	NICN1	cis	parietal	SCAN
rs7434187	AMT	cis	Muscle Skeletal	GTEx
rs7434187	NICN1	cis	cerebellum	SCAN
rs7434187	AMT	cis	Esophagus Muscularis	GTEx
rs7434187	TLR9	cis	parietal	SCAN
rs7434187	AMT	cis	lung	GTEx
rs7434187	QRICH1	cis	cerebellum	SCAN
rs7434187	AMT	cis	Artery Aorta	GTEx
rs7434187	AMT	cis	Nerve Tibial	GTEx
rs7434187	WDR6	cis	Nerve Tibial	GTEx
rs7434187	WDR6	cis	Muscle Skeletal	GTEx
rs7434187	ARIH2	Cis_1M	lymphoblastoid	RTeQTL
rs7434187	P4HTM	cis	parietal	SCAN
rs7434187	LZTFL1	cis	cerebellum	SCAN
rs7434187	AMT	cis	lymphoblastoid	seeQTL
rs7434187	AMT	cis	cerebellum	SCAN

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:49028400-49035600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr3:49028600-49034600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:49028800-49043600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr3:49029000-49043600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr3:49029000-49043800	Weak transcription	Primary B cells from cord blood	blood
6	chr3:49029200-49035400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr3:49029200-49035600	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr3:49029200-49036000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr3:49029200-49043400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr3:49029200-49043400	Weak transcription	Primary hematopoietic stem cells	blood
11	chr3:49029400-49034000	Weak transcription	Left Ventricle	heart
12	chr3:49029400-49034200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr3:49029400-49034200	Weak transcription	Primary B cells from peripheral blood	blood
14	chr3:49029400-49034200	Weak transcription	Primary T cells from cord blood	blood
15	chr3:49029400-49034800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr3:49029400-49034800	Weak transcription	Right Atrium	heart
17	chr3:49029400-49035400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr3:49029400-49036600	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr3:49029400-49036600	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr3:49029400-49036800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr3:49029400-49039400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr3:49029400-49041600	Weak transcription	Liver	Liver
23	chr3:49029400-49043400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr3:49029400-49043600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr3:49029400-49043600	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr3:49029400-49043600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr3:49029400-49043600	Weak transcription	NH-A	brain
28	chr3:49029400-49043800	Weak transcription	Psoas Muscle	Psoas
29	chr3:49029400-49043800	Weak transcription	Monocytes-CD14+_RO01746	blood
30	chr3:49029600-49034200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr3:49029600-49034200	Weak transcription	Brain Angular Gyrus	brain
32	chr3:49029600-49034200	Weak transcription	Brain Cingulate Gyrus	brain
33	chr3:49029600-49034200	Weak transcription	Brain Substantia Nigra	brain
34	chr3:49029600-49034200	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr3:49029600-49034400	Weak transcription	Colonic Mucosa	Colon
36	chr3:49029600-49034600	Weak transcription	Fetal Brain Male	brain
37	chr3:49029600-49036600	Weak transcription	Pancreas	Pancrea
38	chr3:49029600-49039000	Weak transcription	Right Ventricle	heart
39	chr3:49029600-49040200	Weak transcription	Fetal Lung	lung
40	chr3:49029600-49042000	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr3:49029600-49042200	Weak transcription	Ovary	ovary
42	chr3:49029600-49042400	Weak transcription	HMEC	breast
43	chr3:49029600-49043400	Weak transcription	Esophagus	oesophagus
44	chr3:49029600-49043400	Weak transcription	Fetal Kidney	kidney
45	chr3:49029600-49043400	Weak transcription	GM12878-XiMat	blood
46	chr3:49029600-49043400	Weak transcription	NHDF-Ad	bronchial
47	chr3:49029600-49043600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr3:49029600-49043600	Weak transcription	Colon Smooth Muscle	Colon
49	chr3:49029600-49043600	Weak transcription	Rectal Smooth Muscle	rectum
50	chr3:49029600-49043800	Weak transcription	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links