Variant report

Variant	rs7755143
Chromosome Location	chr6:36933170-36933171
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:36930754..36936310-chr6:36950773..36956274,7	MCF-7	breast:
2	chr6:36856253..36859191-chr6:36932885..36935045,2	K562	blood:
3	chr6:36921333..36923898-chr6:36932868..36934927,2	K562	blood:
4	chr6:36929829..36933522-chr6:36953197..36956380,5	MCF-7	breast:
5	chr6:36928176..36930778-chr6:36931482..36933887,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137409	Chromatin interaction
ENSG00000164530	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs12191672	0.93[GIH][hapmap];0.94[MEX][hapmap];0.85[TSI][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17624546	0.83[CEU][hapmap];0.89[MEX][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17624895	0.81[EUR][1000 genomes]
rs2293388	1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs2293389	1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs3778022	0.87[GIH][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap]
rs3778024	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3778026	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3798478	0.87[GIH][hapmap];0.94[MEX][hapmap];0.81[EUR][1000 genomes]
rs4585544	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6901560	1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6914608	0.93[ASN][1000 genomes]
rs734905	1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs753634	0.93[GIH][hapmap];0.94[MEX][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs753635	0.83[CEU][hapmap];0.93[GIH][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9357232	0.96[GIH][hapmap];0.94[MEX][hapmap];0.85[TSI][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9380628	0.93[AMR][1000 genomes];0.86[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	nsv1030015	chr6:36818510-37104446	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv916833	chr6:36826524-37029833	Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
3	nsv885815	chr6:36915906-36979583	Active TSS Flanking Active TSS Genic enhancers Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7755143	PI16	cis	cerebellum	SCAN
rs7755143	LPAR6	trans	lymphoblastoid	seeQTL
rs7755143	PI16	cis	parietal	SCAN

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36927200-36933400	Enhancers	Stomach Mucosa	stomach
2	chr6:36927800-36933200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr6:36928000-36933600	Enhancers	Primary T cells fromperipheralblood	blood
4	chr6:36928200-36935200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:36928600-36935000	Weak transcription	HSMMtube	muscle
6	chr6:36928600-36935400	Weak transcription	Small Intestine	intestine
7	chr6:36928800-36934000	Weak transcription	HSMM	muscle
8	chr6:36928800-36935000	Weak transcription	HUVEC	blood vessel
9	chr6:36929000-36934200	Weak transcription	Osteobl	bone
10	chr6:36929000-36934400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr6:36929000-36934800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:36929000-36935200	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr6:36929000-36935400	Weak transcription	Ovary	ovary
14	chr6:36929000-36935400	Weak transcription	A549	lung
15	chr6:36929200-36934600	Weak transcription	NH-A	brain
16	chr6:36929400-36934400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr6:36929400-36935200	Weak transcription	K562	blood
18	chr6:36929600-36936800	Weak transcription	Hela-S3	cervix
19	chr6:36929800-36933200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
20	chr6:36930400-36933200	Enhancers	Primary T helper cells PMA-I stimulated	--
21	chr6:36930600-36933200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr6:36930600-36933200	Enhancers	Primary T killer memory cells from peripheral blood	blood
23	chr6:36930600-36933200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr6:36930600-36933200	Enhancers	Fetal Heart	heart
25	chr6:36930800-36933200	Enhancers	Primary hematopoietic stem cells	blood
26	chr6:36930800-36933200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
27	chr6:36931000-36933200	Enhancers	Primary hematopoietic stem cells short term culture	blood
28	chr6:36931000-36933200	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
29	chr6:36931000-36933200	Enhancers	Right Ventricle	heart
30	chr6:36931200-36933200	Enhancers	Duodenum Mucosa	Duodenum
31	chr6:36931200-36933200	Enhancers	Gastric	stomach
32	chr6:36931200-36933200	Enhancers	Left Ventricle	heart
33	chr6:36931200-36933200	Enhancers	Pancreas	Pancrea
34	chr6:36931200-36933200	Enhancers	Skeletal Muscle Female	skeletal muscle
35	chr6:36931400-36933200	Enhancers	Primary T cells from cord blood	blood
36	chr6:36931400-36933200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
37	chr6:36931400-36933200	Enhancers	Primary T helper cells fromperipheralblood	blood
38	chr6:36931400-36933200	Enhancers	Adipose Nuclei	Adipose
39	chr6:36931400-36933200	Enhancers	Fetal Lung	lung
40	chr6:36931400-36935000	Weak transcription	HUES64 Cell Line	embryonic stem cell
41	chr6:36931400-36935000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr6:36931400-36935000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
43	chr6:36931400-36935600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr6:36931600-36933200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr6:36931600-36933200	Enhancers	Thymus	Thymus
46	chr6:36931600-36933200	Enhancers	Spleen	Spleen
47	chr6:36931600-36934800	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr6:36931600-36935000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr6:36931600-36935200	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr6:36931600-36935200	Weak transcription	HUES6 Cell Line	embryonic stem cell

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