Variant report

Variant	rs9475776
Chromosome Location	chr6:56962613-56962614
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:56961723-56962633	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:56959009..56963624-chr6:57035365..57039055,4	K562	blood:
2	chr11:62608367..62610850-chr6:56962158..56964132,2	MCF-7	breast:
3	chr6:56916004..56918245-chr6:56961868..56964513,2	K562	blood:

Variant related genes	Relation type
ZNF451	TF binding region
ENSG00000112208	Chromatin interaction
ENSG00000133316	Chromatin interaction
ENSG00000226803	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs61736730	1.00[AFR][1000 genomes]
rs9464414	1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs9464415	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9475756	1.00[YRI][hapmap]
rs9475764	1.00[YRI][hapmap]
rs9475773	1.00[YRI][hapmap]
rs9475777	1.00[AFR][1000 genomes]
rs9475784	1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv533050	chr6:56504480-57297586	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1021651	chr6:56569444-56966319	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv538228	chr6:56569444-56966319	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	esv3430228	chr6:56830972-57079281	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56954000-56966800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:56955200-56962800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:56955200-56963800	Weak transcription	Colonic Mucosa	Colon
4	chr6:56955200-56964200	Weak transcription	Psoas Muscle	Psoas
5	chr6:56955200-56964400	Weak transcription	Pancreas	Pancrea
6	chr6:56955200-56964400	Weak transcription	Spleen	Spleen
7	chr6:56955200-56965400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:56955200-56965600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:56955200-56965800	Weak transcription	Esophagus	oesophagus
10	chr6:56956600-56965200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr6:56956600-56965600	Weak transcription	Gastric	stomach
12	chr6:56956800-56963800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr6:56957000-56963400	Weak transcription	Thymus	Thymus
14	chr6:56957000-56963800	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr6:56957000-56964000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr6:56957000-56964400	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr6:56957000-56965200	Weak transcription	Small Intestine	intestine
18	chr6:56957000-56965400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr6:56957000-56965800	Weak transcription	Stomach Mucosa	stomach
20	chr6:56957200-56963000	Weak transcription	Fetal Lung	lung
21	chr6:56957200-56963200	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr6:56957200-56963800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr6:56957400-56963000	Weak transcription	NHLF	lung
24	chr6:56957400-56963600	Weak transcription	Fetal Kidney	kidney
25	chr6:56957600-56967600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
26	chr6:56957800-56963200	Weak transcription	Primary monocytes fromperipheralblood	blood
27	chr6:56957800-56963200	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr6:56957800-56963800	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr6:56957800-56964400	Weak transcription	Fetal Brain Male	brain
30	chr6:56957800-56965400	Weak transcription	Right Ventricle	heart
31	chr6:56958000-56963400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr6:56958000-56964200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr6:56958200-56963200	Weak transcription	Brain Germinal Matrix	brain
34	chr6:56958200-56963400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
35	chr6:56958200-56979600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
36	chr6:56958400-56965400	Weak transcription	Ovary	ovary
37	chr6:56958600-56963000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr6:56958600-56963600	Weak transcription	Liver	Liver
39	chr6:56958600-56963800	Weak transcription	Brain Hippocampus Middle	brain
40	chr6:56958600-56965400	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr6:56958800-56963200	Weak transcription	Adipose Nuclei	Adipose
42	chr6:56958800-56963800	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr6:56958800-56964000	Weak transcription	Brain Substantia Nigra	brain
44	chr6:56958800-56965000	Weak transcription	Aorta	Aorta
45	chr6:56958800-56974000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr6:56959000-56963200	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr6:56959200-56968200	Strong transcription	Fetal Intestine Large	intestine
48	chr6:56959200-56975000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr6:56959600-56968600	Strong transcription	Primary B cells from peripheral blood	blood
50	chr6:56959600-56969400	Strong transcription	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links