Variant report

Variant	rs10080616
Chromosome Location	chr6:38181954-38181955
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs11967572	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9462414	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9462417	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462421	1.00[JPT][hapmap]
rs9470830	0.92[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv522522	chr6:38131442-38207636	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
6	nsv885818	chr6:38147745-38436317	Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv885819	chr6:38148770-38190439	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv520053	chr6:38154941-38207636	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv885820	chr6:38166511-38468887	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38160800-38201400	Weak transcription	Primary B cells from peripheral blood	blood
2	chr6:38166800-38194800	Weak transcription	Primary B cells from cord blood	blood
3	chr6:38167000-38210400	Weak transcription	Primary T cells from cord blood	blood
4	chr6:38176000-38184800	Enhancers	Fetal Muscle Leg	muscle
5	chr6:38177600-38189200	Weak transcription	Gastric	stomach
6	chr6:38178000-38221600	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr6:38178000-38221800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr6:38178400-38186200	Weak transcription	Aorta	Aorta
9	chr6:38178800-38187800	Weak transcription	Pancreas	Pancrea
10	chr6:38179400-38182400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
11	chr6:38179400-38182800	Enhancers	Colon Smooth Muscle	Colon
12	chr6:38179400-38183000	Enhancers	Brain Substantia Nigra	brain
13	chr6:38179400-38183400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:38179400-38183400	Enhancers	Brain Cingulate Gyrus	brain
15	chr6:38179600-38182200	Enhancers	Adipose Nuclei	Adipose
16	chr6:38179600-38182400	Enhancers	Skeletal Muscle Male	skeletal muscle
17	chr6:38179600-38183400	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr6:38179600-38183600	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr6:38179600-38183600	Enhancers	Brain Anterior Caudate	brain
20	chr6:38179600-38183800	Enhancers	Brain Hippocampus Middle	brain
21	chr6:38179800-38182400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr6:38179800-38182400	Enhancers	Right Atrium	heart
23	chr6:38179800-38182600	Enhancers	HUES48 Cell Line	embryonic stem cell
24	chr6:38179800-38183400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr6:38179800-38183400	Enhancers	Cortex derived primary cultured neurospheres	brain
26	chr6:38179800-38187800	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr6:38180000-38182200	Enhancers	H1 Cell Line	embryonic stem cell
28	chr6:38180000-38182400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:38180000-38184600	Enhancers	Brain Inferior Temporal Lobe	brain
30	chr6:38180200-38183200	Weak transcription	Psoas Muscle	Psoas
31	chr6:38180200-38183400	Enhancers	Brain Angular Gyrus	brain
32	chr6:38180600-38182000	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr6:38180600-38183200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr6:38180600-38183400	Weak transcription	Fetal Brain Female	brain
35	chr6:38180800-38182000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr6:38180800-38182200	Enhancers	Hela-S3	cervix
37	chr6:38180800-38183200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr6:38180800-38187800	Weak transcription	Esophagus	oesophagus
39	chr6:38181000-38182000	Weak transcription	Left Ventricle	heart
40	chr6:38181000-38182000	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr6:38181000-38182600	Weak transcription	Fetal Brain Male	brain
42	chr6:38181000-38183000	Weak transcription	HSMM	muscle
43	chr6:38181000-38207600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr6:38181200-38183000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr6:38181200-38183400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr6:38181400-38182000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr6:38181400-38182000	Weak transcription	Right Ventricle	heart
48	chr6:38181400-38182000	Weak transcription	Stomach Smooth Muscle	stomach
49	chr6:38181400-38182600	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr6:38181400-38182600	Weak transcription	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links