Variant report

Variant	rs9481408
Chromosome Location	chr6:114265287-114265288
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	chr6:114263584..114266129-chr6:114272971..114274599,2	MCF-7	breast:
2	chr6:114260142..114261684-chr6:114265096..114267766,2	K562	blood:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1964139	0.88[ASN][1000 genomes]
rs4391288	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs486957	0.80[ASN][1000 genomes]
rs489636	0.80[ASN][1000 genomes]
rs56099345	0.86[ASN][1000 genomes]
rs59916863	0.86[ASN][1000 genomes]
rs62415875	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62415924	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62415925	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6568819	0.80[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs6907834	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6912132	0.80[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs6913161	0.89[ASN][1000 genomes]
rs72948641	0.87[ASN][1000 genomes]
rs7742680	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9488289	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[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];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9488292	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[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	nsv1021774	chr6:114063971-114407280	Enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv538422	chr6:114063971-114407280	Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	esv3363275	chr6:114101331-114302866	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:114242400-114265400	Weak transcription	Thymus	Thymus
2	chr6:114248600-114265400	Weak transcription	Fetal Heart	heart
3	chr6:114252400-114266800	Weak transcription	Stomach Smooth Muscle	stomach
4	chr6:114253000-114289800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:114253400-114290600	Weak transcription	Aorta	Aorta
6	chr6:114254000-114265800	Weak transcription	Brain Angular Gyrus	brain
7	chr6:114254000-114267800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr6:114254000-114271400	Weak transcription	Stomach Mucosa	stomach
9	chr6:114254200-114265600	Weak transcription	Rectal Smooth Muscle	rectum
10	chr6:114254600-114281800	Strong transcription	Dnd41	blood
11	chr6:114255400-114281600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:114255600-114276600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr6:114256600-114270000	Weak transcription	Brain Cingulate Gyrus	brain
14	chr6:114257400-114265800	Weak transcription	Pancreas	Pancrea
15	chr6:114258200-114265400	Weak transcription	Ovary	ovary
16	chr6:114258200-114267400	Strong transcription	Primary neutrophils fromperipheralblood	blood
17	chr6:114258400-114267400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:114258400-114274200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr6:114258400-114279600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr6:114258600-114265400	Weak transcription	Small Intestine	intestine
21	chr6:114258600-114267400	Strong transcription	Fetal Muscle Trunk	muscle
22	chr6:114258600-114267600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
23	chr6:114258600-114268000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr6:114258600-114270200	Strong transcription	Liver	Liver
25	chr6:114258600-114282600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr6:114258600-114291000	Weak transcription	Lung	lung
27	chr6:114258800-114266800	Weak transcription	A549	lung
28	chr6:114258800-114267400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr6:114258800-114270600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr6:114258800-114279600	Strong transcription	Fetal Intestine Large	intestine
31	chr6:114258800-114281000	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr6:114258800-114281600	Weak transcription	Gastric	stomach
33	chr6:114258800-114285600	Weak transcription	Right Ventricle	heart
34	chr6:114258800-114289800	Weak transcription	Spleen	Spleen
35	chr6:114259000-114289200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr6:114259200-114267400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr6:114259400-114267400	Strong transcription	Placenta	Placenta
38	chr6:114259400-114267600	Strong transcription	Rectal Mucosa Donor 31	rectum
39	chr6:114259400-114268000	Strong transcription	Osteobl	bone
40	chr6:114259400-114269600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr6:114259400-114279800	Strong transcription	Primary monocytes fromperipheralblood	blood
42	chr6:114259400-114281400	Strong transcription	HUES48 Cell Line	embryonic stem cell
43	chr6:114259600-114279600	Strong transcription	Monocytes-CD14+_RO01746	blood
44	chr6:114259600-114281000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
45	chr6:114259800-114267400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
46	chr6:114259800-114267400	Strong transcription	Fetal Brain Female	brain
47	chr6:114259800-114274200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr6:114259800-114274400	Strong transcription	HSMM	muscle
49	chr6:114259800-114280000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr6:114259800-114280600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links