Variant report

Variant	rs28635278
Chromosome Location	chr9:79189810-79189811
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:79186002..79188857-chr9:79189494..79193893,3	MCF-7	breast:
2	chr9:79184663..79187603-chr9:79188827..79190790,2	MCF-7	breast:
3	chr9:79182945..79185840-chr9:79187813..79189947,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000241781	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10119518	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10121652	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10123325	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10521473	1.00[EUR][1000 genomes]
rs11144991	1.00[EUR][1000 genomes]
rs11144993	1.00[EUR][1000 genomes]
rs12336287	1.00[EUR][1000 genomes]
rs12337785	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12340696	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12342460	1.00[EUR][1000 genomes]
rs12344065	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12345816	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12351220	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1346041	1.00[EUR][1000 genomes]
rs17062959	1.00[EUR][1000 genomes]
rs17062964	1.00[EUR][1000 genomes]
rs17062967	1.00[EUR][1000 genomes]
rs17081141	1.00[EUR][1000 genomes]
rs17081142	1.00[EUR][1000 genomes]
rs2015354	1.00[EUR][1000 genomes]
rs28470485	1.00[EUR][1000 genomes]
rs28576740	1.00[EUR][1000 genomes]
rs28587388	1.00[EUR][1000 genomes]
rs55725331	1.00[EUR][1000 genomes]
rs55825540	1.00[EUR][1000 genomes]
rs56026497	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56143215	1.00[EUR][1000 genomes]
rs56145880	1.00[EUR][1000 genomes]
rs56679509	1.00[EUR][1000 genomes]
rs57802610	1.00[EUR][1000 genomes]
rs60467484	1.00[EUR][1000 genomes]
rs6560530	1.00[EUR][1000 genomes]
rs7044442	1.00[EUR][1000 genomes]
rs73449878	1.00[EUR][1000 genomes]
rs73449890	1.00[EUR][1000 genomes]
rs73449896	1.00[EUR][1000 genomes]
rs73452104	1.00[EUR][1000 genomes]
rs73454158	1.00[EUR][1000 genomes]
rs73650254	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73650286	1.00[EUR][1000 genomes]
rs73650287	1.00[EUR][1000 genomes]
rs73650987	1.00[EUR][1000 genomes]
rs73650989	1.00[EUR][1000 genomes]
rs73650990	1.00[EUR][1000 genomes]
rs73650991	1.00[EUR][1000 genomes]
rs73650992	1.00[EUR][1000 genomes]
rs73650994	1.00[EUR][1000 genomes]
rs73650996	1.00[EUR][1000 genomes]
rs73650997	1.00[EUR][1000 genomes]
rs73650998	1.00[EUR][1000 genomes]
rs73650999	1.00[EUR][1000 genomes]
rs73651000	1.00[EUR][1000 genomes]
rs73651001	1.00[EUR][1000 genomes]
rs7848842	1.00[EUR][1000 genomes]
rs7850310	1.00[EUR][1000 genomes]
rs7855826	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7867080	1.00[EUR][1000 genomes]
rs7875591	1.00[EUR][1000 genomes]
rs867646	1.00[EUR][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	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv893479	chr9:78971253-79275226	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv949417	chr9:79078703-79282589	Strong transcription Genic enhancers Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv893480	chr9:79115844-79222584	Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79187000-79190800	Weak transcription	GM12878-XiMat	blood
2	chr9:79187000-79191200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr9:79187000-79191200	Weak transcription	Primary T cells from cord blood	blood
4	chr9:79187000-79191200	Weak transcription	Fetal Thymus	thymus
5	chr9:79187000-79191400	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr9:79187000-79191400	Weak transcription	K562	blood
7	chr9:79187000-79192200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr9:79187000-79193600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:79187000-79195200	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr9:79187000-79200800	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr9:79187200-79190800	Weak transcription	Primary B cells from cord blood	blood
12	chr9:79187200-79191400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr9:79188000-79197000	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr9:79188600-79192600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr9:79188800-79190000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr9:79188800-79190000	Enhancers	Stomach Mucosa	stomach
17	chr9:79188800-79197000	Enhancers	Primary hematopoietic stem cells short term culture	blood
18	chr9:79189000-79190000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr9:79189000-79190000	Enhancers	Fetal Intestine Large	intestine
20	chr9:79189000-79195800	Enhancers	Primary hematopoietic stem cells	blood
21	chr9:79189200-79190600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr9:79189200-79198200	Weak transcription	Gastric	stomach
23	chr9:79189600-79190600	Weak transcription	Small Intestine	intestine
24	chr9:79189600-79190600	Weak transcription	HSMM	muscle
25	chr9:79189600-79190800	Weak transcription	NH-A	brain
26	chr9:79189600-79191200	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr9:79189600-79191200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr9:79189600-79191200	Weak transcription	HMEC	breast
29	chr9:79189600-79193800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr9:79189800-79190200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr9:79189800-79190600	Weak transcription	Fetal Intestine Small	intestine
32	chr9:79189800-79190600	Weak transcription	Osteobl	bone
33	chr9:79189800-79190800	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr9:79189800-79191000	Enhancers	Monocytes-CD14+_RO01746	blood
35	chr9:79189800-79191200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr9:79189800-79191400	Weak transcription	NHDF-Ad	bronchial
37	chr9:79189800-79192400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr9:79189800-79192400	Weak transcription	Duodenum Mucosa	Duodenum
39	chr9:79189800-79199400	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr9:79189800-79200400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links