Variant report

Variant	rs9398967
Chromosome Location	chr6:131291952-131291953
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10872375	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11154611	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11760051	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12193574	0.84[CHD][hapmap]
rs12195366	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12196734	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12197829	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12203760	0.91[CHB][hapmap];0.82[CHD][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs12214021	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1569195	0.91[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs17059954	0.93[CEU][hapmap];0.82[CHB][hapmap];0.81[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1976981	0.85[ASN][1000 genomes]
rs2068147	0.81[CHD][hapmap]
rs2151068	0.93[CEU][hapmap];0.91[CHB][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.85[MEX][hapmap];0.87[TSI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2178282	0.86[ASN][1000 genomes]
rs28812545	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3777440	0.81[CHD][hapmap]
rs3777461	0.81[CHD][hapmap]
rs3777466	0.81[CHD][hapmap]
rs3822863	0.81[CHD][hapmap]
rs4259270	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4498389	0.91[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs62423583	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6901548	0.86[ASN][1000 genomes]
rs6902930	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6903705	0.86[ASN][1000 genomes]
rs6905151	0.80[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs6907809	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs6916206	0.91[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs6921207	0.84[CHD][hapmap]
rs6921542	0.86[ASN][1000 genomes]
rs6926372	0.86[ASN][1000 genomes]
rs7763960	0.85[ASN][1000 genomes]
rs7770892	0.91[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs9321264	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9372987	0.93[CEU][hapmap];0.91[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.85[MEX][hapmap];0.87[TSI][hapmap];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9372989	0.93[CEU][hapmap];0.91[CHB][hapmap];1.00[GIH][hapmap];0.80[JPT][hapmap];0.92[MEX][hapmap];0.87[TSI][hapmap];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9375776	0.86[JPT][hapmap]
rs9375784	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9375785	0.87[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9375787	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9375788	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9375789	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.91[MKK][hapmap];0.91[TSI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9375790	0.93[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9375794	0.91[CHB][hapmap];0.88[CHD][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs9375795	0.91[CEU][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9375796	0.93[CEU][hapmap];0.91[CHB][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.85[MEX][hapmap];0.87[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9375797	0.91[CHB][hapmap];0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs9388855	0.86[JPT][hapmap]
rs9388873	0.93[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9388876	0.92[CEU][hapmap];0.90[CHB][hapmap];0.89[JPT][hapmap];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9388880	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9398969	0.93[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9398970	0.86[ASN][1000 genomes]
rs9398971	0.91[CHB][hapmap];0.80[CHD][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs9398972	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9398973	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9398975	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9398976	0.86[EUR][1000 genomes]
rs9402287	0.86[JPT][hapmap]
rs9402299	0.81[CHD][hapmap]
rs9402301	0.96[ASN][1000 genomes]
rs9402306	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9402310	0.92[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9402313	0.86[ASN][1000 genomes]
rs9402314	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9483210	0.91[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs9492790	0.83[ASN][1000 genomes]
rs9492792	0.91[CHB][hapmap];0.82[CHD][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs951251	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs954919	0.91[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9398967	C6orf174	cis	cerebellum	SCAN
rs9398967	CTGF	cis	parietal	SCAN
rs9398967	EPB41L2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:131253000-131302200	Weak transcription	Primary B cells from cord blood	blood
2	chr6:131267000-131294800	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr6:131272200-131301000	Weak transcription	Placenta	Placenta
4	chr6:131286200-131293600	Weak transcription	Primary hematopoietic stem cells	blood
5	chr6:131288200-131306600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:131288600-131292200	Weak transcription	K562	blood
7	chr6:131289000-131292000	Flanking Active TSS	Osteobl	bone
8	chr6:131289000-131294800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr6:131289200-131292200	Weak transcription	Fetal Thymus	thymus
10	chr6:131289200-131294800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr6:131289200-131294800	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr6:131289400-131296400	Weak transcription	HUVEC	blood vessel
13	chr6:131289600-131298200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:131289600-131300800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr6:131289800-131294400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr6:131289800-131294800	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr6:131289800-131298000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr6:131290200-131294800	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr6:131291200-131294800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr6:131291400-131292000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr6:131291400-131292800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
22	chr6:131291600-131292000	Enhancers	Brain Anterior Caudate	brain
23	chr6:131291600-131292000	Weak transcription	Brain Hippocampus Middle	brain
24	chr6:131291600-131292000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr6:131291600-131292000	Enhancers	A549	lung
26	chr6:131291600-131292200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr6:131291600-131292200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
28	chr6:131291600-131292200	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr6:131291600-131292400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr6:131291600-131292400	Enhancers	Colon Smooth Muscle	Colon
31	chr6:131291600-131292400	Weak transcription	Fetal Kidney	kidney
32	chr6:131291600-131292400	Enhancers	Fetal Muscle Leg	muscle
33	chr6:131291600-131292400	Enhancers	Fetal Stomach	stomach
34	chr6:131291600-131292600	Enhancers	NHDF-Ad	bronchial
35	chr6:131291600-131292800	Enhancers	HSMM	muscle
36	chr6:131291600-131293600	Weak transcription	Brain Substantia Nigra	brain
37	chr6:131291600-131298000	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr6:131291600-131299200	Weak transcription	Pancreas	Pancrea
39	chr6:131291600-131299400	Weak transcription	Right Atrium	heart
40	chr6:131291800-131292000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr6:131291800-131292000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr6:131291800-131292000	Flanking Active TSS	Fetal Lung	lung
43	chr6:131291800-131292000	Flanking Active TSS	NHLF	lung
44	chr6:131291800-131292400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr6:131291800-131292400	Enhancers	Adipose Nuclei	Adipose
46	chr6:131291800-131292400	Enhancers	Fetal Muscle Trunk	muscle
47	chr6:131291800-131292400	Enhancers	Left Ventricle	heart
48	chr6:131291800-131292400	Enhancers	Ovary	ovary
49	chr6:131291800-131292600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr6:131291800-131292600	Enhancers	HSMMtube	muscle

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