Variant report

Variant	rs3848278
Chromosome Location	chr16:69640867-69640868
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs11075726	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11075729	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11640319	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11641686	0.87[ASN][1000 genomes]
rs11641722	0.87[ASN][1000 genomes]
rs11646575	0.82[EUR][1000 genomes]
rs11648335	0.84[ASN][1000 genomes]
rs12599391	0.83[ASW][hapmap];0.87[LWK][hapmap];0.96[MKK][hapmap];0.95[YRI][hapmap];0.84[AFR][1000 genomes]
rs12918548	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12924052	0.84[CEU][hapmap];0.84[JPT][hapmap];0.95[YRI][hapmap]
rs12933210	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1364063	0.83[ASW][hapmap];0.87[LWK][hapmap];0.95[MKK][hapmap];0.95[YRI][hapmap]
rs1437134	0.83[ASW][hapmap];0.87[LWK][hapmap];0.96[MKK][hapmap];0.89[YRI][hapmap]
rs1469908	0.84[CEU][hapmap];0.86[GIH][hapmap];0.90[JPT][hapmap];0.95[LWK][hapmap];0.98[MKK][hapmap];1.00[YRI][hapmap]
rs1837016	0.85[ASN][1000 genomes]
rs1972659	0.81[EUR][1000 genomes]
rs2017448	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2161630	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs244415	0.83[ASW][hapmap];0.87[LWK][hapmap];0.96[MKK][hapmap];0.89[YRI][hapmap]
rs244417	0.83[ASW][hapmap];0.87[LWK][hapmap];0.96[MKK][hapmap];0.95[YRI][hapmap]
rs244418	0.83[ASW][hapmap];0.87[LWK][hapmap];0.96[MKK][hapmap];0.95[YRI][hapmap];0.87[AFR][1000 genomes]
rs244420	0.83[ASW][hapmap];0.87[LWK][hapmap];0.96[MKK][hapmap];0.95[YRI][hapmap];0.84[AFR][1000 genomes]
rs2917670	0.85[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.86[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap];0.85[ASN][1000 genomes]
rs2917671	0.85[ASN][1000 genomes]
rs2965749	0.84[JPT][hapmap];0.83[LWK][hapmap]
rs3811348	0.84[CEU][hapmap];0.89[JPT][hapmap]
rs45488899	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4633710	1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55780735	0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs57497992	0.86[ASN][1000 genomes]
rs6499231	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6499241	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6499244	0.89[YRI][hapmap]
rs669696	0.86[AFR][1000 genomes]
rs7186296	0.89[JPT][hapmap]
rs7187634	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7189878	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7191292	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7192380	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHD][hapmap];0.91[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7192543	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7204433	0.87[ASN][1000 genomes]
rs7205551	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7359336	0.83[ASW][hapmap];0.87[LWK][hapmap];0.96[MKK][hapmap];0.89[YRI][hapmap]
rs8045432	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8049728	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8055756	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8061052	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8061725	0.87[ASN][1000 genomes]
rs862320	0.85[AFR][1000 genomes]
rs889398	0.86[MKK][hapmap]
rs9302604	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.98[TSI][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9783756	0.87[ASN][1000 genomes]
rs9938213	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3848278	HSF4	cis	cerebellum	SCAN

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:69602200-69643200	Weak transcription	Fetal Muscle Leg	muscle
2	chr16:69602200-69646600	Weak transcription	Primary hematopoietic stem cells	blood
3	chr16:69602200-69653600	Weak transcription	Fetal Thymus	thymus
4	chr16:69603000-69647400	Weak transcription	Stomach Smooth Muscle	stomach
5	chr16:69603600-69660000	Weak transcription	Primary B cells from peripheral blood	blood
6	chr16:69605400-69663200	Weak transcription	Fetal Muscle Trunk	muscle
7	chr16:69605600-69660600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr16:69610800-69642000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr16:69611200-69645600	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr16:69612400-69643800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr16:69614000-69643200	Weak transcription	Colon Smooth Muscle	Colon
12	chr16:69614000-69644400	Weak transcription	Adipose Nuclei	Adipose
13	chr16:69617600-69653400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr16:69617800-69646600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr16:69619800-69644800	Weak transcription	Rectal Smooth Muscle	rectum
16	chr16:69622200-69645400	Weak transcription	Spleen	Spleen
17	chr16:69622400-69642000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr16:69622600-69644400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr16:69623800-69646800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr16:69624000-69646800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr16:69624200-69669600	Weak transcription	Ovary	ovary
22	chr16:69624800-69642200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr16:69627000-69645400	Weak transcription	Placenta	Placenta
24	chr16:69627600-69642800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr16:69627600-69648000	Weak transcription	Lung	lung
26	chr16:69628400-69643200	Weak transcription	HSMM	muscle
27	chr16:69629000-69641000	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr16:69629200-69660000	Weak transcription	Primary B cells from cord blood	blood
29	chr16:69629400-69646600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr16:69629400-69648000	Weak transcription	Esophagus	oesophagus
31	chr16:69629400-69648000	Weak transcription	Right Atrium	heart
32	chr16:69629600-69647200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr16:69629800-69643200	Weak transcription	Fetal Lung	lung
34	chr16:69629800-69644600	Weak transcription	HSMMtube	muscle
35	chr16:69629800-69645400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
36	chr16:69630000-69644000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr16:69630000-69646800	Weak transcription	Primary T cells from cord blood	blood
38	chr16:69630000-69652000	Weak transcription	HUVEC	blood vessel
39	chr16:69630200-69644400	Weak transcription	HMEC	breast
40	chr16:69630200-69646600	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr16:69630200-69646800	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr16:69630400-69644000	Weak transcription	Osteobl	bone
43	chr16:69631000-69643800	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr16:69631000-69644800	Weak transcription	Psoas Muscle	Psoas
45	chr16:69631200-69646400	Weak transcription	Fetal Intestine Large	intestine
46	chr16:69631200-69647000	Weak transcription	Liver	Liver
47	chr16:69632600-69643800	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr16:69632800-69643200	Weak transcription	Fetal Brain Male	brain
49	chr16:69632800-69645200	Weak transcription	Brain Anterior Caudate	brain
50	chr16:69632800-69645400	Weak transcription	Right Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links