Variant report

Variant	rs9471038
Chromosome Location	chr6:39249427-39249428
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:39236174..39238959-chr6:39247299..39249650,2	MCF-7	breast:
2	chr6:39246289..39249933-chr6:39249942..39252765,4	MCF-7	breast:
3	chr6:39243650..39250520-chr6:39262135..39271800,15	MCF-7	breast:
4	chr6:39195713..39197963-chr6:39247882..39249799,3	K562	blood:
5	chr6:39195286..39197963-chr6:39246502..39249488,3	K562	blood:

Variant related genes	Relation type
ENSG00000164626	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11961670	1.00[EUR][1000 genomes]
rs11961707	0.83[EUR][1000 genomes]
rs11964657	1.00[EUR][1000 genomes]
rs11965515	1.00[EUR][1000 genomes]
rs11967855	1.00[EUR][1000 genomes]
rs11968074	1.00[EUR][1000 genomes]
rs11969089	1.00[EUR][1000 genomes]
rs2561420	1.00[AMR][1000 genomes]
rs59403189	1.00[EUR][1000 genomes]
rs73420543	1.00[EUR][1000 genomes]
rs7738553	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830644	chr6:39116530-39325980	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv1022974	chr6:39120271-39277553	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv830645	chr6:39227601-39408310	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39240400-39250200	Enhancers	Stomach Mucosa	stomach
2	chr6:39242600-39249600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:39246200-39251000	Enhancers	Liver	Liver
4	chr6:39246800-39250400	Enhancers	Esophagus	oesophagus
5	chr6:39247000-39250200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:39247000-39250200	Enhancers	Rectal Mucosa Donor 29	rectum
7	chr6:39247000-39250400	Enhancers	Sigmoid Colon	Sigmoid Colon
8	chr6:39247200-39250400	Enhancers	Colonic Mucosa	Colon
9	chr6:39247800-39249600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr6:39248200-39250200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr6:39248400-39263400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:39248400-39263400	Weak transcription	Right Atrium	heart
13	chr6:39248800-39252800	Weak transcription	Spleen	Spleen
14	chr6:39249000-39249600	Enhancers	Placenta	Placenta
15	chr6:39249000-39249800	Enhancers	Small Intestine	intestine
16	chr6:39249000-39250600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr6:39249200-39249600	Enhancers	Gastric	stomach
18	chr6:39249200-39249800	Bivalent Enhancer	Fetal Intestine Large	intestine
19	chr6:39249200-39250000	Bivalent Enhancer	Fetal Intestine Small	intestine
20	chr6:39249400-39249600	Enhancers	Duodenum Mucosa	Duodenum
21	chr6:39249400-39249600	Enhancers	Pancreas	Pancrea
22	chr6:39249400-39249800	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
23	chr6:39249400-39250800	Enhancers	Breast Myoepithelial Primary Cells	Breast

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