Variant report

Variant	rs13634
Chromosome Location	chr4:16163209-16163210
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:16152453..16154569-chr4:16162351..16164254,2	K562	blood:

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10006159	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.84[EUR][1000 genomes]
rs10019399	0.95[YRI][hapmap]
rs1025897	0.87[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.93[MKK][hapmap];0.85[TSI][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1046234	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs10939651	0.80[AFR][1000 genomes]
rs11730977	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13133263	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1618243	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1619904	0.80[AFR][1000 genomes]
rs1662650	0.80[AFR][1000 genomes]
rs1662654	0.95[YRI][hapmap]
rs16893162	0.81[ASW][hapmap];0.94[LWK][hapmap];0.84[MKK][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs1712492	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.94[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1712495	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs178450	0.95[YRI][hapmap]
rs192898	0.84[ASN][1000 genomes]
rs203434	0.82[ASW][hapmap];0.82[CEU][hapmap];0.92[CHD][hapmap];0.86[GIH][hapmap];0.94[JPT][hapmap];0.86[LWK][hapmap];0.90[MKK][hapmap];0.95[YRI][hapmap];0.80[AFR][1000 genomes]
rs203435	0.94[JPT][hapmap]
rs317853	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs317854	0.95[YRI][hapmap];0.82[AFR][1000 genomes]
rs317855	0.82[AFR][1000 genomes]
rs317856	0.92[ASN][1000 genomes]
rs317857	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs317862	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs317866	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs317869	0.95[YRI][hapmap]
rs317870	0.95[YRI][hapmap]
rs317872	0.95[YRI][hapmap]
rs317873	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs317875	0.95[YRI][hapmap]
rs317876	0.95[YRI][hapmap]
rs317877	0.94[YRI][hapmap]
rs317878	0.90[YRI][hapmap]
rs317908	0.88[ASN][1000 genomes]
rs317909	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs36012247	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57924303	0.80[AFR][1000 genomes]
rs6812660	0.87[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.95[MKK][hapmap];0.85[TSI][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73130438	0.80[AFR][1000 genomes]
rs7666361	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs961449	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.92[MKK][hapmap];0.85[TSI][hapmap];0.95[YRI][hapmap];0.86[AFR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv998299	chr4:16031459-16226466	Bivalent/Poised TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv1004821	chr4:16055996-16830629	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv537046	chr4:16055996-16830629	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13634	FAHD2B	trans	parietal	SCAN

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:16150800-16166600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr4:16152000-16163800	Weak transcription	Thymus	Thymus
3	chr4:16153000-16163600	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr4:16153000-16164400	Weak transcription	NH-A	brain
5	chr4:16153200-16165200	Weak transcription	HSMM	muscle
6	chr4:16153600-16165600	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr4:16154800-16164400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr4:16157000-16164400	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr4:16157200-16166800	Weak transcription	Brain Angular Gyrus	brain
10	chr4:16157400-16164200	Weak transcription	Primary hematopoietic stem cells	blood
11	chr4:16157600-16163600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr4:16157600-16164600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr4:16157800-16164400	Weak transcription	Brain Anterior Caudate	brain
14	chr4:16157800-16164600	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr4:16157800-16170600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr4:16157800-16180000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr4:16157800-16180400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr4:16158000-16165000	Weak transcription	Brain Cingulate Gyrus	brain
19	chr4:16158000-16175400	Weak transcription	NHDF-Ad	bronchial
20	chr4:16158200-16163600	Weak transcription	Spleen	Spleen
21	chr4:16158200-16163800	Weak transcription	Rectal Smooth Muscle	rectum
22	chr4:16158200-16164400	Weak transcription	Fetal Stomach	stomach
23	chr4:16158400-16163800	Weak transcription	Stomach Smooth Muscle	stomach
24	chr4:16159000-16163800	Enhancers	Fetal Intestine Large	intestine
25	chr4:16159400-16164600	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr4:16159600-16163400	Weak transcription	Dnd41	blood
27	chr4:16159600-16164000	Enhancers	Stomach Mucosa	stomach
28	chr4:16159600-16164800	Weak transcription	K562	blood
29	chr4:16159800-16163800	Weak transcription	Brain Substantia Nigra	brain
30	chr4:16159800-16167400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr4:16160000-16164600	Weak transcription	Brain Germinal Matrix	brain
32	chr4:16160000-16167600	Weak transcription	HepG2	liver
33	chr4:16160200-16163600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr4:16160200-16163600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr4:16160200-16163600	Weak transcription	Fetal Muscle Trunk	muscle
36	chr4:16160200-16163800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr4:16160200-16163800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr4:16160200-16164000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr4:16160200-16164000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr4:16160200-16164400	Weak transcription	Fetal Brain Female	brain
41	chr4:16160200-16164600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr4:16160200-16164600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr4:16160200-16164800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr4:16160200-16165000	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr4:16160200-16173800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr4:16160400-16163800	Enhancers	Rectal Mucosa Donor 31	rectum
47	chr4:16160400-16163800	Weak transcription	Right Atrium	heart
48	chr4:16160400-16164600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr4:16160400-16164600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
50	chr4:16160400-16164800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links