Variant report

Variant	rs9467476
Chromosome Location	chr6:25368978-25368979
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:25367288..25370021-chr6:25385958..25387793,2	K562	blood:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs16890471	0.85[EUR][1000 genomes]
rs16890520	1.00[JPT][hapmap]
rs16890548	1.00[JPT][hapmap]
rs16890551	1.00[JPT][hapmap]
rs55731467	0.95[ASN][1000 genomes]
rs57992726	0.92[ASN][1000 genomes]
rs58095699	0.92[ASN][1000 genomes]
rs58924292	0.92[ASN][1000 genomes]
rs60556647	0.92[ASN][1000 genomes]
rs7769124	1.00[JPT][hapmap]
rs9461146	1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9461147	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9461148	1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9461149	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9467478	1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9467480	0.92[ASN][1000 genomes]
rs9467481	0.85[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883485	chr6:25259137-25437986	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv883486	chr6:25260434-25422369	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv883487	chr6:25280119-25508868	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv830612	chr6:25342408-25509758	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv601168	chr6:25346334-25393306	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25360400-25369200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr6:25360800-25369800	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr6:25361000-25369200	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr6:25361000-25369400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr6:25361000-25369400	Weak transcription	Left Ventricle	heart
6	chr6:25361000-25369800	Weak transcription	Brain Substantia Nigra	brain
7	chr6:25365800-25369200	Weak transcription	Fetal Brain Female	brain
8	chr6:25366600-25369600	Enhancers	Duodenum Mucosa	Duodenum
9	chr6:25366600-25371800	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr6:25367000-25369600	Enhancers	Adipose Nuclei	Adipose
11	chr6:25367200-25369200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr6:25367200-25369600	Enhancers	Brain Anterior Caudate	brain
13	chr6:25367200-25370000	Enhancers	Rectal Mucosa Donor 31	rectum
14	chr6:25367200-25370800	Enhancers	H9 Cell Line	embryonic stem cell
15	chr6:25367200-25370800	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr6:25367200-25370800	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr6:25367200-25370800	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr6:25367200-25370800	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr6:25367400-25369200	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr6:25367600-25369400	Weak transcription	Brain Angular Gyrus	brain
21	chr6:25367800-25369200	Weak transcription	Fetal Intestine Small	intestine
22	chr6:25367800-25369200	Weak transcription	NHEK	skin
23	chr6:25367800-25369400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr6:25367800-25369400	Weak transcription	Liver	Liver
25	chr6:25367800-25369400	Weak transcription	Fetal Intestine Large	intestine
26	chr6:25367800-25369400	Weak transcription	Fetal Muscle Leg	muscle
27	chr6:25367800-25369400	Weak transcription	Gastric	stomach
28	chr6:25367800-25369400	Weak transcription	NHLF	lung
29	chr6:25367800-25369600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr6:25367800-25369600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr6:25367800-25369600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr6:25367800-25369600	Enhancers	Brain Germinal Matrix	brain
33	chr6:25367800-25369800	Weak transcription	A549	lung
34	chr6:25367800-25370000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr6:25367800-25370400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr6:25367800-25370600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
37	chr6:25367800-25371000	Enhancers	Primary hematopoietic stem cells	blood
38	chr6:25368000-25369200	Weak transcription	Brain Cingulate Gyrus	brain
39	chr6:25368000-25369200	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr6:25368000-25369400	Enhancers	Primary T helper cells PMA-I stimulated	--
41	chr6:25368000-25369400	Weak transcription	Fetal Brain Male	brain
42	chr6:25368000-25369400	Enhancers	Fetal Thymus	thymus
43	chr6:25368000-25369400	Weak transcription	Rectal Smooth Muscle	rectum
44	chr6:25368000-25369400	Weak transcription	NHDF-Ad	bronchial
45	chr6:25368000-25369600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
46	chr6:25368000-25369600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr6:25368000-25369600	Weak transcription	Esophagus	oesophagus
48	chr6:25368000-25369600	Weak transcription	Small Intestine	intestine
49	chr6:25368000-25369800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
50	chr6:25368000-25369800	Enhancers	Primary T helper cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links