Variant report

Variant	rs6939236
Chromosome Location	chr6:49522564-49522565
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:49515017..49518306-chr6:49519777..49524035,4	K562	blood:
2	chr6:49431483..49432991-chr6:49522409..49524636,2	MCF-7	breast:
3	chr6:49506422..49508459-chr6:49522309..49524467,2	K562	blood:
4	chr12:102300169..102302246-chr6:49521968..49524948,2	MCF-7	breast:
5	chr6:49512097..49513917-chr6:49520418..49524282,3	K562	blood:
6	chr6:49499696..49501316-chr6:49522105..49524371,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136048	Chromatin interaction
ENSG00000197261	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs2501967	0.83[MKK][hapmap]
rs6458703	0.82[MKK][hapmap]
rs6919674	0.91[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7762249	1.00[LWK][hapmap];1.00[MKK][hapmap];0.91[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9357622	0.86[AFR][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	nsv1024959	chr6:49290141-49652124	Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1021136	chr6:49295037-49631278	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv885881	chr6:49439805-49575141	Weak transcription Bivalent Enhancer Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv933942	chr6:49480550-50004231	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
5	nsv933833	chr6:49515134-49961765	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:49519200-49524000	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr6:49519400-49526600	Enhancers	Hela-S3	cervix
3	chr6:49519400-49533600	Weak transcription	Pancreas	Pancrea
4	chr6:49520000-49523800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr6:49520000-49524000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr6:49520200-49524000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr6:49520400-49523000	Enhancers	Stomach Mucosa	stomach
8	chr6:49520400-49523800	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:49520400-49524000	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr6:49520600-49523800	Weak transcription	Fetal Intestine Large	intestine
11	chr6:49520600-49529800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:49520800-49524000	Weak transcription	Primary hematopoietic stem cells	blood
13	chr6:49521200-49525000	Weak transcription	Esophagus	oesophagus
14	chr6:49521400-49522800	Enhancers	HepG2	liver
15	chr6:49521400-49524200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr6:49521600-49523600	Weak transcription	NH-A	brain
17	chr6:49521600-49523800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:49521600-49524000	Weak transcription	NHDF-Ad	bronchial
19	chr6:49521800-49523800	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr6:49522000-49522600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr6:49522000-49522600	Genic enhancers	NHEK	skin
22	chr6:49522000-49523000	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
23	chr6:49522000-49523400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr6:49522000-49523400	Weak transcription	HUVEC	blood vessel
25	chr6:49522000-49523600	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr6:49522000-49524600	Weak transcription	Duodenum Mucosa	Duodenum
27	chr6:49522400-49522600	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
28	chr6:49522400-49522800	Enhancers	Fetal Intestine Small	intestine
29	chr6:49522400-49522800	Flanking Active TSS	A549	lung
30	chr6:49522400-49523000	Genic enhancers	HMEC	breast
31	chr6:49522400-49523600	Genic enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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