Variant report

Variant	rs6900842
Chromosome Location	chr6:160535652-160535653
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:160521991..160524984-chr6:160534412..160536685,2	K562	blood:
2	chr6:160534504..160540683-chr6:160541496..160546529,8	K562	blood:
3	chr6:160533915..160535859-chr6:160566276..160567824,2	K562	blood:

Variant related genes	Relation type
ENSG00000175003	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1479355	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1867351	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3798173	0.85[EUR][1000 genomes]
rs4646272	0.89[ASN][1000 genomes]
rs4709399	0.82[ASN][1000 genomes]
rs4709400	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6935207	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7753051	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7769472	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9346808	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9365131	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][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	esv2758089	chr6:160372244-161234665	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	esv2759484	chr6:160372244-161234665	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	esv35098	chr6:160422589-161070870	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	esv2757197	chr6:160432331-161070870	Weak transcription Genic enhancers Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
5	nsv818463	chr6:160435569-161025547	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:160512000-160539200	Weak transcription	Stomach Mucosa	stomach
2	chr6:160521800-160537600	Strong transcription	Fetal Intestine Small	intestine
3	chr6:160523200-160540200	Weak transcription	Fetal Heart	heart
4	chr6:160526200-160539000	Weak transcription	Colon Smooth Muscle	Colon
5	chr6:160526200-160548600	Weak transcription	K562	blood
6	chr6:160526400-160536800	Weak transcription	Primary B cells from peripheral blood	blood
7	chr6:160526800-160537000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr6:160526800-160538600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr6:160526800-160540600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr6:160526800-160545000	Weak transcription	HMEC	breast
11	chr6:160527000-160538800	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr6:160527000-160545000	Weak transcription	NHDF-Ad	bronchial
13	chr6:160527200-160541200	Weak transcription	Osteobl	bone
14	chr6:160527400-160538400	Weak transcription	Brain Cingulate Gyrus	brain
15	chr6:160527400-160538800	Weak transcription	Brain Hippocampus Middle	brain
16	chr6:160527400-160549200	Weak transcription	Colonic Mucosa	Colon
17	chr6:160527400-160550000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr6:160527600-160541200	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr6:160527800-160538000	Weak transcription	Gastric	stomach
20	chr6:160528000-160538000	Weak transcription	Liver	Liver
21	chr6:160528000-160538400	Weak transcription	Ovary	ovary
22	chr6:160528600-160538000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr6:160528800-160535800	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr6:160529000-160539600	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr6:160529200-160538000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr6:160529200-160538200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr6:160529200-160538400	Weak transcription	Brain Anterior Caudate	brain
28	chr6:160529200-160538400	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr6:160529200-160538800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr6:160529400-160537600	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr6:160529400-160538000	Weak transcription	Right Ventricle	heart
32	chr6:160529400-160538200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr6:160529400-160538200	Weak transcription	Brain Substantia Nigra	brain
34	chr6:160529400-160538400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr6:160529400-160538400	Weak transcription	Esophagus	oesophagus
36	chr6:160529400-160548000	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr6:160529400-160559200	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr6:160529600-160536400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr6:160529600-160538200	Weak transcription	Pancreas	Pancrea
40	chr6:160529600-160538600	Weak transcription	Brain Angular Gyrus	brain
41	chr6:160530400-160548600	Weak transcription	Rectal Smooth Muscle	rectum
42	chr6:160530600-160543000	Weak transcription	Fetal Lung	lung
43	chr6:160530800-160542800	Weak transcription	Right Atrium	heart
44	chr6:160530800-160553400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr6:160531000-160537600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr6:160531000-160538400	Weak transcription	Stomach Smooth Muscle	stomach
47	chr6:160531000-160538800	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr6:160531400-160536200	Weak transcription	Fetal Muscle Trunk	muscle
49	chr6:160531400-160536400	Weak transcription	Fetal Thymus	thymus
50	chr6:160531400-160536600	Weak transcription	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links