Variant report

Variant	rs10012869
Chromosome Location	chr4:57908274-57908275
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11133474	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11573105	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11573113	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2137767	1.00[EUR][1000 genomes]
rs2137768	1.00[EUR][1000 genomes]
rs2137769	1.00[EUR][1000 genomes]
rs2276896	1.00[CHB][hapmap]
rs28622279	1.00[EUR][1000 genomes]
rs28665598	1.00[EUR][1000 genomes]
rs3755904	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs73818656	1.00[EUR][1000 genomes]
rs73818658	1.00[EUR][1000 genomes]
rs7679765	1.00[EUR][1000 genomes]
rs7680133	1.00[EUR][1000 genomes]
rs7695678	1.00[EUR][1000 genomes]
rs9999347	0.93[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv868815	chr4:57114268-58084688	Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	88 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:57889000-57910200	Weak transcription	Esophagus	oesophagus
2	chr4:57896800-57909200	Weak transcription	Psoas Muscle	Psoas
3	chr4:57898000-57909800	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr4:57898200-57910000	Weak transcription	Lung	lung
5	chr4:57898800-57917800	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr4:57899200-57914600	Weak transcription	Brain Substantia Nigra	brain
7	chr4:57899400-57909800	Weak transcription	Duodenum Mucosa	Duodenum
8	chr4:57899400-57925000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr4:57899600-57909800	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr4:57899600-57913000	Weak transcription	Fetal Intestine Small	intestine
11	chr4:57899600-57942200	Weak transcription	Primary hematopoietic stem cells	blood
12	chr4:57899800-57909400	Weak transcription	Primary monocytes fromperipheralblood	blood
13	chr4:57902600-57908400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
14	chr4:57903600-57909000	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr4:57904400-57910200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr4:57904600-57908800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr4:57904600-57909200	Weak transcription	Brain Hippocampus Middle	brain
18	chr4:57904600-57909200	Weak transcription	Rectal Smooth Muscle	rectum
19	chr4:57904600-57909800	Weak transcription	Brain Anterior Caudate	brain
20	chr4:57904800-57908800	Weak transcription	Colon Smooth Muscle	Colon
21	chr4:57904800-57912200	Weak transcription	Brain Angular Gyrus	brain
22	chr4:57904800-57922200	Weak transcription	Brain Cingulate Gyrus	brain
23	chr4:57905200-57908600	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr4:57905800-57908400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr4:57905800-57909000	Weak transcription	Placenta	Placenta
26	chr4:57906400-57908400	Enhancers	A549	lung
27	chr4:57906400-57909800	Weak transcription	HMEC	breast
28	chr4:57906600-57911600	Enhancers	Ovary	ovary
29	chr4:57906800-57910400	Strong transcription	NHEK	skin
30	chr4:57906800-57911600	Enhancers	Fetal Muscle Leg	muscle
31	chr4:57907000-57908600	Weak transcription	NH-A	brain
32	chr4:57907000-57909200	Weak transcription	Right Ventricle	heart
33	chr4:57907000-57910000	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr4:57907000-57911200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr4:57907000-57914800	Weak transcription	Fetal Heart	heart
36	chr4:57907200-57908600	Weak transcription	HUVEC	blood vessel
37	chr4:57907200-57908800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr4:57907200-57908800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr4:57907200-57909400	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr4:57907200-57909400	Weak transcription	Fetal Kidney	kidney
41	chr4:57907200-57909600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr4:57907200-57910000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr4:57907200-57913400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
44	chr4:57907400-57909200	Weak transcription	HSMM	muscle
45	chr4:57907400-57916600	Weak transcription	Monocytes-CD14+_RO01746	blood
46	chr4:57907600-57909200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr4:57907800-57908400	Strong transcription	HSMMtube	muscle
48	chr4:57907800-57910200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr4:57907800-57911200	Enhancers	Left Ventricle	heart
50	chr4:57908000-57908400	Genic enhancers	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links