Variant report

Variant	rs9344696
Chromosome Location	chr6:87976450-87976451
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 166 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:164)

rs_ID	r²[population]
rs107689	0.82[ASN][1000 genomes]
rs107690	0.82[ASN][1000 genomes]
rs1080595	0.83[ASN][1000 genomes]
rs1080596	0.83[ASN][1000 genomes]
rs1201409	0.84[ASN][1000 genomes]
rs12176253	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12190280	0.84[ASN][1000 genomes]
rs12664578	0.83[ASN][1000 genomes]
rs173333	0.86[ASN][1000 genomes]
rs1753154	0.96[ASN][1000 genomes]
rs183599	0.84[ASN][1000 genomes]
rs1925689	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1925695	0.85[ASN][1000 genomes]
rs1980790	0.83[ASN][1000 genomes]
rs1980791	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1980792	0.83[ASN][1000 genomes]
rs2025630	0.80[ASN][1000 genomes]
rs2031518	0.83[ASN][1000 genomes]
rs2147917	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2147918	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2147919	0.84[ASN][1000 genomes]
rs2147920	0.85[ASN][1000 genomes]
rs2147921	0.85[ASN][1000 genomes]
rs2182181	0.85[ASN][1000 genomes]
rs2240459	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2240460	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs242267	0.84[ASN][1000 genomes]
rs242270	0.84[ASN][1000 genomes]
rs242278	0.86[ASN][1000 genomes]
rs242279	0.86[ASN][1000 genomes]
rs242280	0.85[ASN][1000 genomes]
rs242281	0.85[ASN][1000 genomes]
rs242283	0.94[ASN][1000 genomes]
rs242285	0.81[ASN][1000 genomes]
rs242286	0.81[ASN][1000 genomes]
rs2474349	0.96[ASN][1000 genomes]
rs2985039	0.88[ASN][1000 genomes]
rs35788380	0.84[EUR][1000 genomes]
rs369674	0.87[ASN][1000 genomes]
rs3734187	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs373646	0.84[ASN][1000 genomes]
rs376633	0.87[ASN][1000 genomes]
rs3812130	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3812132	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs381782	0.88[ASN][1000 genomes]
rs3846773	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3846774	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3846775	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3846776	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3857483	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3857484	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3857485	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3857488	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs390272	0.81[ASN][1000 genomes]
rs3903920	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3904088	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4099964	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4110984	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4110985	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs445434	0.88[ASN][1000 genomes]
rs446851	0.86[ASN][1000 genomes]
rs447077	0.86[ASN][1000 genomes]
rs448580	0.88[ASN][1000 genomes]
rs451089	0.88[ASN][1000 genomes]
rs451465	0.87[ASN][1000 genomes]
rs451829	0.88[ASN][1000 genomes]
rs4574603	0.86[EUR][1000 genomes]
rs4591818	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4605853	0.84[ASN][1000 genomes]
rs4706289	0.83[ASN][1000 genomes]
rs4707346	0.85[ASN][1000 genomes]
rs4707347	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4707348	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4707351	0.88[ASN][1000 genomes]
rs4707352	0.88[ASN][1000 genomes]
rs4707356	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4707357	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4707358	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs586771	0.84[ASN][1000 genomes]
rs62439492	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6454589	0.87[EUR][1000 genomes]
rs6454591	0.83[ASN][1000 genomes]
rs6454592	0.82[ASN][1000 genomes]
rs6454593	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6454594	0.88[ASN][1000 genomes]
rs6454595	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6454596	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6454597	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6454598	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6454599	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6454600	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6899394	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6904310	0.83[ASN][1000 genomes]
rs6907805	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6909021	0.82[ASN][1000 genomes]
rs6909200	0.83[ASN][1000 genomes]
rs6910991	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6913721	0.85[ASN][1000 genomes]
rs6913932	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6914193	0.86[ASN][1000 genomes]
rs6916994	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6917432	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6921007	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6921504	0.84[ASN][1000 genomes]
rs6921619	0.80[ASN][1000 genomes]
rs6925648	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6926563	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6926831	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6926838	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6927748	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6932678	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6933046	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6934603	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6937874	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6940544	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7453986	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7739034	0.83[ASN][1000 genomes]
rs7739726	0.83[ASN][1000 genomes]
rs7742478	0.83[ASN][1000 genomes]
rs7742710	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7748191	0.83[ASN][1000 genomes]
rs7748879	0.84[ASN][1000 genomes]
rs7752485	0.86[ASN][1000 genomes]
rs7752882	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7753030	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7755244	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7755883	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7757827	0.81[ASN][1000 genomes]
rs7758618	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7763365	0.83[ASN][1000 genomes]
rs7766324	0.83[ASN][1000 genomes]
rs7767449	0.83[ASN][1000 genomes]
rs7768575	0.83[ASN][1000 genomes]
rs7774080	0.87[EUR][1000 genomes]
rs7774603	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7776407	0.83[ASN][1000 genomes]
rs910563	0.84[ASN][1000 genomes]
rs9294374	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9344690	0.85[ASN][1000 genomes]
rs9344691	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9344693	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9344695	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9344697	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9351114	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9351124	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9353455	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9353462	0.80[ASN][1000 genomes]
rs9353463	0.83[ASN][1000 genomes]
rs9353464	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9353465	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9353466	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9353468	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9353473	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9359734	0.86[EUR][1000 genomes]
rs9359743	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9362408	0.83[ASN][1000 genomes]
rs9362411	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9362413	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9362415	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9362417	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9450634	0.85[ASN][1000 genomes]
rs9450647	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9450650	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9450652	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][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	esv2758067	chr6:87817883-87992957	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2759453	chr6:87817883-87992957	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9344696	C6orf162	Cis_1M	lymphoblastoid	RTeQTL
rs9344696	SLC35A1	Cis_1M	lymphoblastoid	RTeQTL
rs9344696	C6orf163	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:87957200-87981000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:87966200-87977200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr6:87966400-87989200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr6:87967600-87983000	Weak transcription	Esophagus	oesophagus
5	chr6:87967800-87989000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr6:87968200-87977200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr6:87968200-87991200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr6:87968400-87984400	Weak transcription	NHDF-Ad	bronchial
9	chr6:87968600-87984200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr6:87969800-87981800	Weak transcription	Primary T cells from cord blood	blood
11	chr6:87970000-87977600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr6:87970000-87984600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr6:87970200-87978000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr6:87970200-87984600	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr6:87970400-87978000	Weak transcription	Left Ventricle	heart
16	chr6:87970400-87984400	Weak transcription	NH-A	brain
17	chr6:87970600-87976600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr6:87970600-87977200	Weak transcription	Fetal Kidney	kidney
19	chr6:87970600-87983400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr6:87970600-87984200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr6:87970600-87988800	Weak transcription	Fetal Thymus	thymus
22	chr6:87970600-87994800	Weak transcription	Fetal Brain Female	brain
23	chr6:87971200-87985800	Weak transcription	Brain Germinal Matrix	brain
24	chr6:87971400-87977200	Weak transcription	HSMM	muscle
25	chr6:87971400-87977800	Weak transcription	Dnd41	blood
26	chr6:87974800-87978600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:87975000-87984200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr6:87975200-87982200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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