Variant report

Variant	rs72831248
Chromosome Location	chr6:25421325-25421326
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12153885	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12195837	0.96[ASN][1000 genomes]
rs12200019	0.88[ASN][1000 genomes]
rs12206709	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1304166	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1876372	0.88[ASN][1000 genomes]
rs1876373	0.88[ASN][1000 genomes]
rs2076890	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6905021	0.81[ASN][1000 genomes]
rs72831254	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7449710	0.88[ASN][1000 genomes]
rs7760659	0.96[ASN][1000 genomes]
rs9461171	0.88[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:50 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25411000-25451800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr6:25414600-25423600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:25415000-25446200	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr6:25415200-25431800	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr6:25415600-25422400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr6:25415600-25424000	Weak transcription	Thymus	Thymus
7	chr6:25416200-25441000	Weak transcription	Fetal Thymus	thymus
8	chr6:25416200-25447800	Weak transcription	Pancreas	Pancrea
9	chr6:25416600-25427600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr6:25416600-25447800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr6:25417600-25431800	Weak transcription	Duodenum Mucosa	Duodenum
12	chr6:25418000-25429200	Weak transcription	Aorta	Aorta
13	chr6:25418400-25422000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr6:25418600-25426200	Weak transcription	Gastric	stomach
15	chr6:25418800-25421600	Weak transcription	Adipose Nuclei	Adipose
16	chr6:25418800-25462600	Weak transcription	Ovary	ovary
17	chr6:25419400-25421400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
18	chr6:25419400-25430600	Weak transcription	Left Ventricle	heart
19	chr6:25419600-25421400	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
20	chr6:25419800-25421400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr6:25419800-25429000	Weak transcription	Small Intestine	intestine
22	chr6:25420000-25421400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr6:25420200-25421400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr6:25420200-25421400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
25	chr6:25420200-25421600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr6:25420400-25421400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr6:25420400-25421400	Strong transcription	Fetal Intestine Large	intestine
28	chr6:25420400-25423600	Weak transcription	Right Atrium	heart
29	chr6:25420600-25422400	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr6:25420600-25423600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr6:25420600-25423800	Weak transcription	Primary hematopoietic stem cells	blood
32	chr6:25420600-25425400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr6:25420600-25426200	Weak transcription	Pancreatic Islets	Pancreatic Islet
34	chr6:25420600-25429400	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr6:25420600-25432000	Weak transcription	Monocytes-CD14+_RO01746	blood
36	chr6:25420800-25421600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr6:25420800-25423600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr6:25420800-25431800	Weak transcription	Primary monocytes fromperipheralblood	blood
39	chr6:25420800-25431800	Weak transcription	Fetal Intestine Small	intestine
40	chr6:25420800-25436600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr6:25420800-25441800	Weak transcription	H1 Cell Line	embryonic stem cell
42	chr6:25420800-25445400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr6:25421000-25421400	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
44	chr6:25421000-25423400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr6:25421000-25423400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr6:25421000-25423800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr6:25421000-25431400	Weak transcription	Fetal Lung	lung
48	chr6:25421000-25431800	Weak transcription	Cortex derived primary cultured neurospheres	brain
49	chr6:25421000-25438600	Weak transcription	Primary B cells from cord blood	blood
50	chr6:25421000-25440400	Weak transcription	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links