Variant report

Variant	rs4895579
Chromosome Location	chr6:140303401-140303402
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:140258578..140260462-chr6:140302697..140304606,2	K562	blood:
2	chr6:140297195..140299311-chr6:140303038..140305448,2	K562	blood:
3	chr6:139694274..139697260-chr6:140301652..140304164,2	MCF-7	breast:
4	chr6:140303056..140305268-chr6:140307414..140309226,2	K562	blood:
5	chr6:140299794..140302085-chr6:140302801..140306484,3	K562	blood:
6	chr6:140291815..140294274-chr6:140303049..140305531,2	K562	blood:
7	chr6:140303154..140305947-chr6:140324733..140327620,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1102076	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1361248	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1416288	0.94[CEU][hapmap];0.95[CHB][hapmap];0.85[YRI][hapmap];0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs188002	0.84[YRI][hapmap]
rs201281	0.83[YRI][hapmap]
rs594560	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs603321	0.94[CEU][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs623233	0.94[CEU][hapmap];0.96[EUR][1000 genomes]
rs623331	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs642858	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs644467	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs646695	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs646747	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs674672	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6933684	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9376483	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9376484	0.94[CEU][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9403133	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[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	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv1019407	chr6:140087307-140304334	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1016532	chr6:140174639-141029988	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140292600-140306000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr6:140297400-140305800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr6:140298200-140305600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr6:140298200-140306200	Enhancers	Hela-S3	cervix
5	chr6:140298800-140305800	Enhancers	Osteobl	bone
6	chr6:140298800-140306000	Enhancers	NHLF	lung
7	chr6:140300400-140305200	Enhancers	Fetal Kidney	kidney
8	chr6:140300400-140305600	Enhancers	Fetal Heart	heart
9	chr6:140300600-140304200	Enhancers	K562	blood
10	chr6:140300600-140305600	Enhancers	NH-A	brain
11	chr6:140300600-140305800	Enhancers	HSMM	muscle
12	chr6:140300600-140306600	Enhancers	Placenta	Placenta
13	chr6:140300800-140304400	Enhancers	Placenta Amnion	Placenta Amnion
14	chr6:140300800-140305200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr6:140300800-140305800	Enhancers	HSMMtube	muscle
16	chr6:140301000-140306200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:140301000-140306200	Enhancers	NHDF-Ad	bronchial
18	chr6:140301600-140304800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr6:140301600-140305400	Enhancers	Fetal Intestine Small	intestine
20	chr6:140301800-140304200	Enhancers	H1 Cell Line	embryonic stem cell
21	chr6:140301800-140304400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr6:140301800-140305600	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr6:140301800-140305600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr6:140301800-140305600	Enhancers	HMEC	breast
25	chr6:140302000-140304800	Enhancers	HUES48 Cell Line	embryonic stem cell
26	chr6:140302000-140304800	Enhancers	NHEK	skin
27	chr6:140302000-140305200	Enhancers	Adipose Nuclei	Adipose
28	chr6:140302000-140305400	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr6:140302000-140305800	Enhancers	Cortex derived primary cultured neurospheres	brain
30	chr6:140302400-140304000	Enhancers	HUES64 Cell Line	embryonic stem cell
31	chr6:140302400-140305200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr6:140302600-140304000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
33	chr6:140302600-140304000	Enhancers	Duodenum Mucosa	Duodenum
34	chr6:140302600-140304200	Enhancers	Rectal Mucosa Donor 31	rectum
35	chr6:140302600-140304800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr6:140302600-140304800	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr6:140302600-140305000	Enhancers	iPS-15b Cell Line	embryonic stem cell
38	chr6:140302600-140305000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
39	chr6:140302600-140305600	Enhancers	Fetal Lung	lung
40	chr6:140302600-140306200	Enhancers	Fetal Intestine Large	intestine
41	chr6:140302800-140303800	Weak transcription	Fetal Brain Female	brain
42	chr6:140302800-140305200	Enhancers	Fetal Stomach	stomach
43	chr6:140302800-140311000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr6:140303000-140303600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr6:140303000-140304200	Enhancers	Primary monocytes fromperipheralblood	blood
46	chr6:140303000-140304200	Enhancers	Colonic Mucosa	Colon
47	chr6:140303000-140304200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
48	chr6:140303000-140304200	Enhancers	Fetal Brain Male	brain
49	chr6:140303000-140304200	Enhancers	Left Ventricle	heart
50	chr6:140303000-140304200	Enhancers	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links