Variant report

Variant	rs9470029
Chromosome Location	chr6:35420628-35420629
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:35418643..35423313-chr6:35462563..35468017,10	K562	blood:
2	chr6:35259972..35262009-chr6:35419216..35421184,2	MCF-7	breast:
3	chr6:35415818..35424678-chr6:35432486..35440672,36	K562	blood:
4	chr6:35309852..35312289-chr6:35417832..35421264,4	K562	blood:
5	chr6:35265057..35265957-chr6:35419424..35420709,3	K562	blood:
6	chr1:157015112..157015779-chr6:35419871..35420809,2	Hela-S3	cervix:
7	chr6:35418617..35424875-chr6:35434196..35438070,12	MCF-7	breast:
8	chr6:35308697..35314051-chr6:35417510..35421585,8	K562	blood:
9	chr6:35262981..35267829-chr6:35418945..35424124,7	K562	blood:
10	chr6:35309118..35313462-chr6:35418133..35422102,7	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000065029	Chromatin interaction
ENSG00000132694	Chromatin interaction
ENSG00000112033	Chromatin interaction
ENSG00000198755	Chromatin interaction
ENSG00000023892	Chromatin interaction
ENSG00000007866	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10947548	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10947550	0.80[EUR][1000 genomes]
rs11755391	0.92[EUR][1000 genomes]
rs11962317	0.86[YRI][hapmap]
rs2395626	0.81[EUR][1000 genomes]
rs3800377	0.88[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];0.86[JPT][hapmap];0.82[MEX][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6457823	0.86[YRI][hapmap]
rs6457824	0.86[YRI][hapmap]
rs6926662	0.86[YRI][hapmap]
rs6927367	0.86[YRI][hapmap]
rs9462088	0.86[YRI][hapmap]
rs9470033	0.86[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830641	chr6:35282534-35440603	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	57 gene(s)	inside rSNPs	diseases
2	nsv602909	chr6:35356640-35423489	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv528351	chr6:35377922-35465786	Flanking Active TSS Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	69 gene(s)	inside rSNPs	diseases
4	nsv885799	chr6:35378778-35442397	Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	54 gene(s)	inside rSNPs	diseases
5	nsv462908	chr6:35378778-35457396	Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
6	nsv602910	chr6:35378778-35457396	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
7	nsv519370	chr6:35378778-35537406	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	72 gene(s)	inside rSNPs	diseases

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs9470029	RPL10A	cis	cerebellum	SCAN
rs9470029	RPL10A	cis	parietal	SCAN
rs9470029	RPL10A	cis	Whole Blood	GTEx
rs9470029	MAPK13	cis	cerebellum	SCAN
rs9470029	ZNF76	cis	cerebellum	SCAN
rs9470029	TULP1	cis	parietal	SCAN
rs9470029	RPL10A	cis	Artery Tibial	GTEx
rs9470029	KCNK5	cis	cerebellum	SCAN

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35419200-35420800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr6:35419200-35421200	Flanking Active TSS	Primary hematopoietic stem cells	blood
3	chr6:35419200-35421400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr6:35419600-35420800	Active TSS	Brain Angular Gyrus	brain
5	chr6:35419600-35420800	Active TSS	Fetal Kidney	kidney
6	chr6:35419600-35420800	Active TSS	Pancreatic Islets	Pancreatic Islet
7	chr6:35419600-35421000	Active TSS	H9 Cell Line	embryonic stem cell
8	chr6:35419600-35421000	Active TSS	Brain Inferior Temporal Lobe	brain
9	chr6:35419600-35421000	Active TSS	Fetal Brain Female	brain
10	chr6:35419600-35421200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
11	chr6:35419600-35421200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr6:35419600-35421200	Active TSS	Psoas Muscle	Psoas
13	chr6:35419600-35421200	Active TSS	Right Atrium	heart
14	chr6:35419600-35421400	Active TSS	Ovary	ovary
15	chr6:35419600-35421600	Active TSS	Aorta	Aorta
16	chr6:35419800-35420800	Active TSS	ES-I3 Cell Line	embryonic stem cell
17	chr6:35419800-35420800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:35419800-35420800	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr6:35419800-35420800	Active TSS	HUES48 Cell Line	embryonic stem cell
20	chr6:35419800-35420800	Active TSS	HUES64 Cell Line	embryonic stem cell
21	chr6:35419800-35420800	Active TSS	iPS-15b Cell Line	embryonic stem cell
22	chr6:35419800-35420800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr6:35419800-35420800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr6:35419800-35420800	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr6:35419800-35420800	Active TSS	Primary T killer memory cells from peripheral blood	blood
26	chr6:35419800-35420800	Active TSS	Brain Cingulate Gyrus	brain
27	chr6:35419800-35420800	Active TSS	Brain Substantia Nigra	brain
28	chr6:35419800-35420800	Active TSS	Colon Smooth Muscle	Colon
29	chr6:35419800-35420800	Active TSS	Fetal Intestine Large	intestine
30	chr6:35419800-35420800	Active TSS	Lung	lung
31	chr6:35419800-35420800	Active TSS	Small Intestine	intestine
32	chr6:35419800-35420800	Active TSS	Hela-S3	cervix
33	chr6:35419800-35420800	Active TSS	HSMM	muscle
34	chr6:35419800-35420800	Active TSS	Osteobl	bone
35	chr6:35419800-35421000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr6:35419800-35421000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr6:35419800-35421000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr6:35419800-35421000	Active TSS	Fetal Lung	lung
39	chr6:35419800-35421000	Active TSS	Fetal Stomach	stomach
40	chr6:35419800-35421000	Active TSS	Thymus	Thymus
41	chr6:35419800-35421000	Active TSS	K562	blood
42	chr6:35419800-35421000	Active TSS	NHLF	lung
43	chr6:35419800-35421200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr6:35419800-35421200	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr6:35419800-35421200	Active TSS	Brain Anterior Caudate	brain
46	chr6:35419800-35421200	Active TSS	HSMMtube	muscle
47	chr6:35420000-35420800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
48	chr6:35420000-35420800	Active TSS	Esophagus	oesophagus
49	chr6:35420000-35420800	Active TSS	Placenta Amnion	Placenta Amnion
50	chr6:35420000-35421000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell

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