Variant report

Variant	rs12206709
Chromosome Location	chr6:25415117-25415118
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs12153885	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12195837	0.83[ASN][1000 genomes]
rs12200019	0.86[EUR][1000 genomes]
rs1304166	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs2076890	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72831248	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7760659	0.83[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	nsv883485	chr6:25259137-25437986	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv883486	chr6:25260434-25422369	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv883487	chr6:25280119-25508868	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv830612	chr6:25342408-25509758	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv1850810	chr6:25405576-25462543	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25406400-25420200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:25407200-25420200	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr6:25408400-25415400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:25408400-25416000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:25408600-25417200	Weak transcription	Primary B cells from cord blood	blood
6	chr6:25409000-25419000	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr6:25409800-25415200	Enhancers	Small Intestine	intestine
8	chr6:25410400-25415600	Enhancers	Thymus	Thymus
9	chr6:25411000-25451800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr6:25411600-25418200	Weak transcription	Lung	lung
11	chr6:25411800-25415200	Enhancers	Primary T cells from cord blood	blood
12	chr6:25412400-25416200	Enhancers	Fetal Thymus	thymus
13	chr6:25412600-25415400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
14	chr6:25412600-25415600	Enhancers	Primary hematopoietic stem cells short term culture	blood
15	chr6:25412600-25415600	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr6:25412600-25417200	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr6:25412800-25415200	Enhancers	NHDF-Ad	bronchial
18	chr6:25412800-25415600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr6:25412800-25415600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr6:25412800-25417800	Enhancers	HUES48 Cell Line	embryonic stem cell
21	chr6:25412800-25417800	Enhancers	iPS-18 Cell Line	embryonic stem cell
22	chr6:25413000-25415200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr6:25413000-25415200	Enhancers	Osteobl	bone
24	chr6:25413000-25415400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr6:25413000-25415800	Enhancers	iPS-20b Cell Line	embryonic stem cell
26	chr6:25413000-25416400	Enhancers	Right Atrium	heart
27	chr6:25413000-25417800	Enhancers	HUES6 Cell Line	embryonic stem cell
28	chr6:25413000-25417800	Enhancers	HUES64 Cell Line	embryonic stem cell
29	chr6:25413200-25415200	Enhancers	Adipose Nuclei	Adipose
30	chr6:25413200-25415200	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr6:25413200-25416200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr6:25413200-25418000	Enhancers	iPS-15b Cell Line	embryonic stem cell
33	chr6:25413400-25415200	Enhancers	H1 Cell Line	embryonic stem cell
34	chr6:25413400-25415200	Enhancers	H9 Cell Line	embryonic stem cell
35	chr6:25413400-25415200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr6:25413600-25415200	Enhancers	Rectal Mucosa Donor 29	rectum
37	chr6:25413600-25416800	Weak transcription	Fetal Intestine Small	intestine
38	chr6:25413800-25415400	Enhancers	Ovary	ovary
39	chr6:25413800-25415600	Enhancers	Left Ventricle	heart
40	chr6:25413800-25416200	Weak transcription	Fetal Intestine Large	intestine
41	chr6:25413800-25417000	Weak transcription	Fetal Kidney	kidney
42	chr6:25414000-25415200	Weak transcription	Primary T cells fromperipheralblood	blood
43	chr6:25414000-25416400	Weak transcription	Duodenum Mucosa	Duodenum
44	chr6:25414000-25416800	Weak transcription	Primary B cells from peripheral blood	blood
45	chr6:25414000-25417200	Weak transcription	Spleen	Spleen
46	chr6:25414000-25418200	Weak transcription	Stomach Mucosa	stomach
47	chr6:25414400-25416000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr6:25414400-25417400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr6:25414400-25418600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr6:25414400-25419800	Weak transcription	Pancreatic Islets	Pancreatic Islet

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