Variant report

Variant	rs9484629
Chromosome Location	chr6:142682328-142682329
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:142659623..142661197-chr6:142681381..142684257,2	MCF-7	breast:
2	chr6:142681414..142683380-chr6:142691600..142694541,2	MCF-7	breast:
3	chr6:142675895..142678114-chr6:142681303..142684417,3	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs13437156	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1411147	1.00[AMR][1000 genomes]
rs6921559	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6939432	1.00[MEX][hapmap]
rs9484627	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484628	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484634	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484635	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484636	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484638	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484640	1.00[ASW][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];1.00[AMR][1000 genomes]
rs9484641	1.00[AMR][1000 genomes]
rs9484644	1.00[AMR][1000 genomes]
rs9496336	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496350	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496351	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496359	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496362	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496363	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496375	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496376	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496381	1.00[ASW][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496383	1.00[AMR][1000 genomes]
rs9496384	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496385	1.00[AMR][1000 genomes]
rs9496386	1.00[AMR][1000 genomes]
rs9496387	1.00[AMR][1000 genomes]
rs9496393	1.00[AMR][1000 genomes]
rs9496407	1.00[AMR][1000 genomes]
rs9496408	1.00[AMR][1000 genomes]
rs9496410	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv830825	chr6:142585242-142752575	Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9484629	UGT2B17	trans	lymphoblastoid	seeQTL

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142676800-142688600	Weak transcription	Fetal Heart	heart
2	chr6:142677800-142682400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr6:142677800-142682400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr6:142678000-142682400	Weak transcription	HMEC	breast
5	chr6:142679400-142684800	Weak transcription	Fetal Brain Female	brain
6	chr6:142679400-142688200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:142679400-142693200	Weak transcription	Hela-S3	cervix
8	chr6:142679600-142683000	Weak transcription	Fetal Kidney	kidney
9	chr6:142680800-142682400	Weak transcription	Fetal Intestine Small	intestine
10	chr6:142680800-142683800	Enhancers	Fetal Lung	lung
11	chr6:142681000-142682600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr6:142681000-142682800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr6:142681000-142695200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr6:142681200-142682600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr6:142681200-142683000	Genic enhancers	HepG2	liver
16	chr6:142681200-142684000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr6:142681400-142683000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr6:142681400-142684000	Enhancers	Placenta Amnion	Placenta Amnion
19	chr6:142682000-142682600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr6:142682000-142682800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr6:142682000-142683000	Enhancers	Esophagus	oesophagus
22	chr6:142682000-142683800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr6:142682000-142683800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr6:142682000-142683800	Enhancers	Placenta	Placenta
25	chr6:142682000-142683800	Enhancers	NHLF	lung
26	chr6:142682000-142684000	Enhancers	Liver	Liver
27	chr6:142682000-142684000	Enhancers	HUVEC	blood vessel
28	chr6:142682200-142682800	Enhancers	Fetal Brain Male	brain
29	chr6:142682200-142683200	Enhancers	HSMM	muscle
30	chr6:142682200-142683600	Enhancers	Osteobl	bone
31	chr6:142682200-142683800	Enhancers	Muscle Satellite Cultured Cells	--
32	chr6:142682200-142683800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr6:142682200-142683800	Enhancers	Fetal Intestine Large	intestine
34	chr6:142682200-142683800	Flanking Active TSS	A549	lung

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