Variant report

Variant	rs9496330
Chromosome Location	chr6:142623965-142623966
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs28461686	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496331	0.85[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496333	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv830825	chr6:142585242-142752575	Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1029666	chr6:142594099-142643084	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	esv275340	chr6:142620405-142624568	Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142621800-142625600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr6:142622000-142624000	Active TSS	Fetal Kidney	kidney
3	chr6:142622000-142624200	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
4	chr6:142622000-142624600	Active TSS	Rectal Smooth Muscle	rectum
5	chr6:142622200-142624200	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
6	chr6:142622200-142624200	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
7	chr6:142622200-142624200	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
8	chr6:142622200-142624600	Active TSS	Esophagus	oesophagus
9	chr6:142622200-142624600	Active TSS	Placenta Amnion	Placenta Amnion
10	chr6:142622200-142624800	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
11	chr6:142622200-142625000	Bivalent/Poised TSS	HepG2	liver
12	chr6:142622200-142626400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr6:142622200-142626800	Active TSS	A549	lung
14	chr6:142622400-142624000	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
15	chr6:142622400-142624200	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr6:142622400-142624200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
17	chr6:142622400-142624400	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
18	chr6:142622400-142624400	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
19	chr6:142622400-142624400	Bivalent/Poised TSS	Fetal Stomach	stomach
20	chr6:142622400-142624400	Active TSS	Right Atrium	heart
21	chr6:142622400-142624600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
22	chr6:142622400-142624600	Active TSS	Rectal Mucosa Donor 29	rectum
23	chr6:142622400-142624600	Active TSS	Stomach Mucosa	stomach
24	chr6:142622400-142624800	Active TSS	Hela-S3	cervix
25	chr6:142622400-142625400	Active TSS	NHEK	skin
26	chr6:142622400-142625600	Active TSS	Duodenum Mucosa	Duodenum
27	chr6:142622400-142625800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr6:142622400-142626200	Active TSS	Fetal Lung	lung
29	chr6:142622400-142627600	Active TSS	NHLF	lung
30	chr6:142622600-142624000	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
31	chr6:142622600-142624400	Active TSS	HSMM	muscle
32	chr6:142622600-142624600	Active TSS	Lung	lung
33	chr6:142622600-142624800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr6:142622600-142625600	Active TSS	Placenta	Placenta
35	chr6:142622600-142625800	Active TSS	Fetal Brain Female	brain
36	chr6:142623000-142624800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr6:142623000-142626200	Active TSS	Liver	Liver
38	chr6:142623200-142624200	Bivalent/Poised TSS	Fetal Intestine Large	intestine
39	chr6:142623400-142624000	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
40	chr6:142623400-142624000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr6:142623400-142624000	Bivalent/Poised TSS	Right Ventricle	heart
42	chr6:142623400-142624000	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
43	chr6:142623600-142624000	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
44	chr6:142623600-142624000	Bivalent/Poised TSS	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr6:142623600-142624000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr6:142623600-142624000	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
47	chr6:142623600-142624000	Enhancers	Primary T helper naive cells from peripheral blood	blood
48	chr6:142623600-142624200	Bivalent Enhancer	Fetal Thymus	thymus
49	chr6:142623600-142624200	Bivalent/Poised TSS	Thymus	Thymus
50	chr6:142623600-142624600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links