Variant report

Variant	rs13202504
Chromosome Location	chr6:1537875-1537876
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:1536939..1538440-chr6:1580470..1582016,2	K562	blood:

Extended variants
information (count: 16 )
Associated
traits (count: 10 )

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs62388641	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024111	chr6:1231850-1730146	Flanking Active TSS Bivalent/Poised TSS Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv1021924	chr6:1254891-1736995	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv538082	chr6:1254891-1736995	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv917248	chr6:1365437-1627813	Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
5	nsv1034039	chr6:1427061-1691837	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
6	nsv538088	chr6:1427061-1691837	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
7	nsv530548	chr6:1441421-2351608	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
8	nsv1027393	chr6:1446300-1692019	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
9	nsv538089	chr6:1446300-1692019	Bivalent Enhancer Weak transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
10	nsv883374	chr6:1454334-1558449	Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv1016859	chr6:1460020-1645819	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
12	nsv883375	chr6:1478613-1558449	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
13	nsv1021878	chr6:1486780-1545589	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
14	nsv538090	chr6:1486780-1545589	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
15	nsv883376	chr6:1535043-1635082	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

mRNA abundance (count:10)

SNP	Gene	Cis/trans	Tissue	Source
rs13202504	RP11-157J24.2	cis	Nerve Tibial	GTEx
rs13202504	RP11-157J24.2	cis	Artery Tibial	GTEx
rs13202504	RP11-157J24.2	cis	Esophagus Muscularis	GTEx
rs13202504	RP11-157J24.2	cis	lung	GTEx
rs13202504	RP11-157J24.2	cis	Artery Aorta	GTEx
rs13202504	RP11-157J24.2	cis	Skin Sun Exposed Lower leg	GTEx
rs13202504	RP11-157J24.2	cis	Thyroid	GTEx
rs13202504	RP11-157J24.2	cis	Adipose Subcutaneous	GTEx
rs13202504	RP11-157J24.2	cis	Muscle Skeletal	GTEx
rs13202504	RP11-157J24.2	cis	Esophagus Mucosa	GTEx

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:1527800-1555000	Weak transcription	Gastric	stomach
2	chr6:1528800-1545600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:1534800-1538200	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr6:1534800-1538400	Enhancers	Primary T cells fromperipheralblood	blood
5	chr6:1535000-1538800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr6:1535400-1538000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr6:1535800-1538600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:1535800-1539200	Weak transcription	Adipose Nuclei	Adipose
9	chr6:1535800-1543200	Weak transcription	Esophagus	oesophagus
10	chr6:1535800-1546000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr6:1535800-1554400	Weak transcription	Psoas Muscle	Psoas
12	chr6:1536000-1538000	Enhancers	Primary T helper naive cells from peripheral blood	blood
13	chr6:1536000-1538000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
14	chr6:1536000-1538200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:1536000-1538400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr6:1536000-1538400	Weak transcription	NHEK	skin
17	chr6:1536000-1538600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
18	chr6:1536000-1538600	Enhancers	Primary T helper cells PMA-I stimulated	--
19	chr6:1536000-1538600	Weak transcription	HMEC	breast
20	chr6:1536000-1538800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr6:1536000-1545800	Weak transcription	Aorta	Aorta
22	chr6:1536000-1547800	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr6:1536000-1547800	Weak transcription	Osteobl	bone
24	chr6:1536000-1554000	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr6:1536200-1546400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr6:1536600-1538200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr6:1536600-1538600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
28	chr6:1536600-1540200	Enhancers	Fetal Muscle Leg	muscle
29	chr6:1537000-1538600	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr6:1537200-1538200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
31	chr6:1537200-1538200	Weak transcription	Fetal Muscle Trunk	muscle
32	chr6:1537200-1554000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr6:1537400-1538000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr6:1537400-1546400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr6:1537600-1547800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr6:1537600-1553200	Weak transcription	Duodenum Mucosa	Duodenum
37	chr6:1537800-1538000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain

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