Variant report

Variant	rs9401014
Chromosome Location	chr6:117921010-117921011
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:117920370..117923452-chr6:117923960..117927734,3	MCF-7	breast:
2	chr6:117803111..117805938-chr6:117918781..117921818,3	MCF-7	breast:
3	chr6:117919537..117925760-chr6:117993513..117997816,10	K562	blood:
4	chr6:117919854..117927630-chr6:117992313..117999313,9	K562	blood:
5	chr6:117920433..117922107-chr6:117922176..117924055,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164465	Chromatin interaction
ENSG00000047932	Chromatin interaction
ENSG00000153989	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10457315	0.89[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10457318	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10872153	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11153672	0.94[JPT][hapmap]
rs12205963	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1501474	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1532680	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1759	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1967193	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1967194	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2062663	1.00[CHB][hapmap];0.93[JPT][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2071825	0.96[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2088870	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs210617	0.89[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs210630	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs210633	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs210637	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs210639	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs210642	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3752848	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4946265	0.88[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4946267	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4946269	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4946273	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs67663020	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9285425	0.85[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9285426	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9320612	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9320614	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9320616	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9320617	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9374671	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9374674	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9387491	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9401019	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9401023	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9489223	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9489238	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9765895	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9767060	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532050	chr6:117528154-118203005	ZNF genes & repeats Enhancers Bivalent Enhancer Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:117871600-117922600	Weak transcription	Stomach Mucosa	stomach
2	chr6:117874600-117921400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr6:117887600-117922200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr6:117892200-117921400	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr6:117894800-117922400	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr6:117904400-117921200	Weak transcription	Esophagus	oesophagus
7	chr6:117904400-117921200	Weak transcription	Pancreas	Pancrea
8	chr6:117904400-117922800	Weak transcription	Gastric	stomach
9	chr6:117911600-117921200	Weak transcription	Primary neutrophils fromperipheralblood	blood
10	chr6:117911600-117921200	Weak transcription	Stomach Smooth Muscle	stomach
11	chr6:117911600-117922000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr6:117912400-117922200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr6:117916600-117921200	Weak transcription	Duodenum Mucosa	Duodenum
14	chr6:117916600-117922400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr6:117916800-117921200	Weak transcription	Colonic Mucosa	Colon
16	chr6:117918600-117921600	Transcr. at gene 5' and 3'	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr6:117918800-117921400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr6:117918800-117922000	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr6:117919200-117922000	Weak transcription	Fetal Heart	heart
20	chr6:117919400-117921200	Weak transcription	Fetal Kidney	kidney
21	chr6:117919400-117922400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
22	chr6:117919400-117922800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr6:117919600-117921400	Transcr. at gene 5' and 3'	Muscle Satellite Cultured Cells	--
24	chr6:117919600-117921400	Transcr. at gene 5' and 3'	Osteobl	bone
25	chr6:117919600-117922000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
26	chr6:117919800-117921200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
27	chr6:117919800-117921200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
28	chr6:117919800-117921200	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr6:117919800-117921400	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr6:117919800-117921600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:117919800-117922000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr6:117920000-117921200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr6:117920000-117921200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr6:117920000-117921200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr6:117920000-117921200	Weak transcription	Primary B cells from peripheral blood	blood
36	chr6:117920000-117921200	Enhancers	Primary T cells from cord blood	blood
37	chr6:117920000-117921200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
38	chr6:117920000-117921200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr6:117920000-117921200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr6:117920000-117921200	Weak transcription	Fetal Stomach	stomach
41	chr6:117920000-117921200	Weak transcription	Fetal Thymus	thymus
42	chr6:117920000-117921200	Weak transcription	Left Ventricle	heart
43	chr6:117920000-117921200	Weak transcription	Lung	lung
44	chr6:117920000-117921200	Weak transcription	Ovary	ovary
45	chr6:117920000-117921200	Weak transcription	Right Atrium	heart
46	chr6:117920000-117921200	Weak transcription	Spleen	Spleen
47	chr6:117920000-117921400	Weak transcription	Fetal Intestine Large	intestine
48	chr6:117920000-117921400	Weak transcription	Fetal Intestine Small	intestine
49	chr6:117920000-117921600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr6:117920000-117921600	Weak transcription	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links