Variant report

Variant	rs3778398
Chromosome Location	chr6:166979176-166979177
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:166975267..166978295-chr6:166978843..166980508,3	K562	blood:
2	chr6:166974194..166976909-chr6:166977553..166980494,3	K562	blood:
3	chr6:166964236..166966556-chr6:166978667..166980857,2	K562	blood:

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs3799623	0.96[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6456095	0.80[AFR][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	esv3490076	chr6:166727901-167306743	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
2	esv3490077	chr6:166727901-167306743	Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
3	nsv886941	chr6:166907173-166996991	Strong transcription Weak transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA	5 gene(s)	inside rSNPs	diseases
4	nsv5592	chr6:166958317-167002951	Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1029530	chr6:166977678-167016052	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:166968400-166985800	Weak transcription	Fetal Kidney	kidney
2	chr6:166970800-166979800	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr6:166970800-166986200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:166971000-166986000	Weak transcription	Pancreas	Pancrea
5	chr6:166971400-166980200	Weak transcription	Brain Anterior Caudate	brain
6	chr6:166972200-166979600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr6:166972200-166986000	Weak transcription	Gastric	stomach
8	chr6:166972400-166979200	Weak transcription	NHEK	skin
9	chr6:166973000-166979200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr6:166973400-166984600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr6:166973800-166979200	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr6:166973800-166986000	Weak transcription	Fetal Intestine Small	intestine
13	chr6:166974000-166979400	Weak transcription	Brain Substantia Nigra	brain
14	chr6:166974000-166989600	Weak transcription	Primary T cells from cord blood	blood
15	chr6:166974200-166981600	Enhancers	Fetal Muscle Leg	muscle
16	chr6:166974400-166992400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr6:166974600-166979400	Genic enhancers	Fetal Stomach	stomach
18	chr6:166974600-166981000	Enhancers	Skeletal Muscle Female	skeletal muscle
19	chr6:166974800-166986000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:166975000-166979200	Weak transcription	Brain Angular Gyrus	brain
21	chr6:166975600-166979400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr6:166975600-166981600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr6:166975800-166979600	Weak transcription	HSMM	muscle
24	chr6:166975800-166980000	Weak transcription	Osteobl	bone
25	chr6:166976200-166981600	Enhancers	Fetal Muscle Trunk	muscle
26	chr6:166976400-166979600	Weak transcription	NHDF-Ad	bronchial
27	chr6:166976400-166988600	Weak transcription	Ovary	ovary
28	chr6:166976600-166979600	Weak transcription	Right Ventricle	heart
29	chr6:166976800-166979800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr6:166977000-166979600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr6:166977000-166980200	Weak transcription	Brain Germinal Matrix	brain
32	chr6:166977000-166983000	Weak transcription	Esophagus	oesophagus
33	chr6:166977600-166980400	Weak transcription	HUVEC	blood vessel
34	chr6:166977800-166979400	Genic enhancers	Muscle Satellite Cultured Cells	--
35	chr6:166977800-166985800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr6:166978000-166980000	Genic enhancers	Skeletal Muscle Male	skeletal muscle
37	chr6:166978000-166981600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr6:166978000-166981800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr6:166978000-166982200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr6:166978200-166979400	Strong transcription	Primary neutrophils fromperipheralblood	blood
41	chr6:166978200-166981600	Enhancers	NHLF	lung
42	chr6:166978200-166984600	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr6:166978200-166984600	Weak transcription	Fetal Brain Female	brain
44	chr6:166978400-166979400	Enhancers	Stomach Smooth Muscle	stomach
45	chr6:166978400-166980400	Genic enhancers	Spleen	Spleen
46	chr6:166978600-166979200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr6:166978600-166979200	Enhancers	Adipose Nuclei	Adipose
48	chr6:166978600-166981600	Genic enhancers	Lung	lung
49	chr6:166978600-166983200	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr6:166978600-166985800	Weak transcription	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links