Variant report

Variant	rs58657257
Chromosome Location	chr6:25426061-25426062
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1028885	0.96[ASN][1000 genomes]
rs41271807	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4712938	0.90[ASN][1000 genomes]
rs57541514	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59284567	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6900224	0.96[ASN][1000 genomes]
rs969645	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	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
3	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
4	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:43 , 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	chr6:25415000-25446200	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr6:25415200-25431800	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr6:25416200-25441000	Weak transcription	Fetal Thymus	thymus
5	chr6:25416200-25447800	Weak transcription	Pancreas	Pancrea
6	chr6:25416600-25427600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr6:25416600-25447800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr6:25417600-25431800	Weak transcription	Duodenum Mucosa	Duodenum
9	chr6:25418000-25429200	Weak transcription	Aorta	Aorta
10	chr6:25418600-25426200	Weak transcription	Gastric	stomach
11	chr6:25418800-25462600	Weak transcription	Ovary	ovary
12	chr6:25419400-25430600	Weak transcription	Left Ventricle	heart
13	chr6:25419800-25429000	Weak transcription	Small Intestine	intestine
14	chr6:25420600-25426200	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr6:25420600-25429400	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr6:25420600-25432000	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr6:25420800-25431800	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr6:25420800-25431800	Weak transcription	Fetal Intestine Small	intestine
19	chr6:25420800-25436600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr6:25420800-25441800	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr6:25420800-25445400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr6:25421000-25431400	Weak transcription	Fetal Lung	lung
23	chr6:25421000-25431800	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr6:25421000-25438600	Weak transcription	Primary B cells from cord blood	blood
25	chr6:25421000-25440400	Weak transcription	Primary T cells from cord blood	blood
26	chr6:25421400-25429400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr6:25421400-25436400	Weak transcription	Fetal Intestine Large	intestine
28	chr6:25421400-25442200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr6:25421400-25446200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr6:25421600-25432000	Weak transcription	Brain Cingulate Gyrus	brain
31	chr6:25421600-25446200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr6:25423200-25439800	Weak transcription	NHEK	skin
33	chr6:25424000-25426200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr6:25424000-25426600	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr6:25424000-25429400	Weak transcription	Right Atrium	heart
36	chr6:25424800-25427800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr6:25424800-25431600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
38	chr6:25425000-25431600	Weak transcription	Primary hematopoietic stem cells	blood
39	chr6:25425200-25426400	Enhancers	HUES48 Cell Line	embryonic stem cell
40	chr6:25425200-25426600	Enhancers	HUES64 Cell Line	embryonic stem cell
41	chr6:25425200-25427800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr6:25425400-25426400	Enhancers	iPS-20b Cell Line	embryonic stem cell
43	chr6:25425600-25427000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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