Variant report

Variant	rs16841396
Chromosome Location	chr4:7907892-7907893
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:7891241..7895444-chr4:7905345..7908483,3	MCF-7	breast:
2	chr4:7907878..7909854-chr4:7910012..7912974,3	MCF-7	breast:

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

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

rs_ID	r²[population]
rs11932600	1.00[AMR][1000 genomes]
rs11937029	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12641498	0.83[YRI][hapmap]
rs13139805	0.83[YRI][hapmap]
rs16841372	1.00[MEX][hapmap]
rs16841394	1.00[MEX][hapmap]
rs16841417	1.00[MEX][hapmap]
rs16841422	1.00[MEX][hapmap]
rs17770447	0.91[YRI][hapmap]
rs1878325	0.91[YRI][hapmap]
rs6848540	0.83[YRI][hapmap]

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	nsv491712	chr4:7582506-8155069	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	esv34140	chr4:7787936-8172491	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
3	esv2754386	chr4:7822449-7992909	Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2756298	chr4:7822449-7992909	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv878578	chr4:7841833-7969594	Enhancers Flanking Active TSS Genic enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:7894200-7912400	Weak transcription	Fetal Intestine Large	intestine
2	chr4:7899800-7930600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr4:7900200-7912400	Weak transcription	NHEK	skin
4	chr4:7900800-7914400	Enhancers	ES-I3 Cell Line	embryonic stem cell
5	chr4:7901000-7909000	Enhancers	Fetal Brain Female	brain
6	chr4:7901400-7909400	Enhancers	Fetal Lung	lung
7	chr4:7901600-7914400	Enhancers	Fetal Muscle Leg	muscle
8	chr4:7902000-7909200	Enhancers	Fetal Heart	heart
9	chr4:7902000-7909400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr4:7903400-7911400	Weak transcription	Pancreas	Pancrea
11	chr4:7903400-7911600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr4:7903600-7915000	Enhancers	Fetal Stomach	stomach
13	chr4:7904200-7909400	Enhancers	Right Atrium	heart
14	chr4:7904400-7909400	Enhancers	NHLF	lung
15	chr4:7904600-7910000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr4:7904600-7910400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr4:7904600-7910400	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr4:7904800-7910000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr4:7904800-7910400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr4:7904800-7911200	Weak transcription	Gastric	stomach
21	chr4:7904800-7912200	Weak transcription	Duodenum Mucosa	Duodenum
22	chr4:7905000-7911200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr4:7905200-7911200	Weak transcription	Small Intestine	intestine
24	chr4:7905200-7911800	Weak transcription	Aorta	Aorta
25	chr4:7905400-7908200	Enhancers	Brain Anterior Caudate	brain
26	chr4:7905400-7908600	Flanking Active TSS	Osteobl	bone
27	chr4:7905600-7908000	Flanking Active TSS	NHDF-Ad	bronchial
28	chr4:7905600-7908400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr4:7905600-7908400	Enhancers	Brain Angular Gyrus	brain
30	chr4:7905600-7909200	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr4:7905600-7912400	Enhancers	HUES6 Cell Line	embryonic stem cell
32	chr4:7905800-7908000	Enhancers	Skeletal Muscle Female	skeletal muscle
33	chr4:7905800-7908600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr4:7905800-7908600	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr4:7905800-7909000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
36	chr4:7905800-7909200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr4:7905800-7909200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
38	chr4:7905800-7909200	Enhancers	Fetal Kidney	kidney
39	chr4:7905800-7909400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr4:7905800-7909400	Enhancers	Fetal Thymus	thymus
41	chr4:7906000-7908800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
42	chr4:7906000-7909000	Weak transcription	H9 Cell Line	embryonic stem cell
43	chr4:7906000-7909200	Weak transcription	Primary T helper cells PMA-I stimulated	--
44	chr4:7906000-7909400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr4:7906000-7911000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr4:7906000-7914200	Enhancers	Cortex derived primary cultured neurospheres	brain
47	chr4:7906200-7908000	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr4:7906200-7908000	Enhancers	Brain Hippocampus Middle	brain
49	chr4:7906200-7908400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr4:7906200-7908400	Enhancers	Placenta Amnion	Placenta Amnion

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