Variant report

Variant	rs9654581
Chromosome Location	chr6:34814099-34814100
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11756392	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11759235	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1555773	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16894959	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1883638	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2395607	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764203	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764204	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2764205	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2814948	0.83[EUR][1000 genomes]
rs2814960	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2814962	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28567450	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4472337	0.80[EUR][1000 genomes]
rs56693020	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59142559	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60643641	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61431557	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457790	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6911549	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6936177	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6938239	0.86[EUR][1000 genomes]
rs73419607	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73419621	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7755822	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7762485	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296130	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462012	0.88[EUR][1000 genomes]
rs9462014	0.89[EUR][1000 genomes]
rs9462016	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462025	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462029	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462032	0.84[AFR][1000 genomes]
rs9469860	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469864	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469890	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469895	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469897	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469900	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469907	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469910	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469911	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469913	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9688715	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022844	chr6:34317219-35060519	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv538195	chr6:34317219-35060519	Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	nsv885785	chr6:34404636-34874002	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
4	nsv1033583	chr6:34471572-34828372	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
5	nsv885793	chr6:34520267-34886436	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
6	esv2763967	chr6:34566255-34925463	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
7	nsv1020710	chr6:34607214-34890143	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
8	nsv885795	chr6:34704613-34823187	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	24 gene(s)	inside rSNPs	diseases
9	nsv870010	chr6:34713359-34880048	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	33 gene(s)	inside rSNPs	diseases
10	nsv1025374	chr6:34723723-34887316	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic 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 miRNA target site	33 gene(s)	inside rSNPs	diseases
11	nsv462905	chr6:34728253-34886436	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	30 gene(s)	inside rSNPs	diseases
12	nsv602906	chr6:34728253-34886436	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	30 gene(s)	inside rSNPs	diseases
13	nsv1028363	chr6:34733071-34859045	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	30 gene(s)	inside rSNPs	diseases
14	nsv885796	chr6:34739726-34823187	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	20 gene(s)	inside rSNPs	diseases
15	nsv1015792	chr6:34741917-34887316	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	30 gene(s)	inside rSNPs	diseases
16	nsv1021733	chr6:34751052-34887316	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	30 gene(s)	inside rSNPs	diseases
17	nsv1016703	chr6:34784801-34827693	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
18	nsv1026121	chr6:34786887-34961360	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
19	nsv885797	chr6:34791027-34980601	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers 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 miRNA target site	18 gene(s)	inside rSNPs	diseases
20	nsv1033135	chr6:34802652-34957093	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9654581	C6orf107	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34779400-34841000	Weak transcription	NH-A	brain
2	chr6:34781600-34824000	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:34786600-34838800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr6:34788200-34831800	Weak transcription	HUVEC	blood vessel
5	chr6:34788400-34826600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr6:34788400-34826800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:34788400-34830800	Weak transcription	Fetal Heart	heart
8	chr6:34790000-34825000	Weak transcription	Stomach Mucosa	stomach
9	chr6:34797400-34824600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr6:34797800-34819800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr6:34800800-34825200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr6:34802800-34823400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr6:34803200-34823800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr6:34803400-34823600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr6:34803800-34824200	Weak transcription	Fetal Brain Male	brain
16	chr6:34804200-34818000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr6:34804200-34819000	Weak transcription	Fetal Lung	lung
18	chr6:34804200-34819200	Weak transcription	Colonic Mucosa	Colon
19	chr6:34804200-34819200	Weak transcription	Esophagus	oesophagus
20	chr6:34804200-34823400	Weak transcription	Small Intestine	intestine
21	chr6:34804200-34824200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr6:34804400-34818600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr6:34804400-34818600	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr6:34804400-34818800	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr6:34804400-34819000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr6:34804400-34819000	Weak transcription	Ovary	ovary
27	chr6:34804400-34819000	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr6:34804400-34819000	Weak transcription	GM12878-XiMat	blood
29	chr6:34804400-34819200	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr6:34804400-34819200	Weak transcription	Aorta	Aorta
31	chr6:34804400-34819200	Weak transcription	Brain Angular Gyrus	brain
32	chr6:34804400-34819200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr6:34804400-34819200	Weak transcription	Lung	lung
34	chr6:34804400-34819200	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr6:34804400-34819600	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr6:34804400-34819600	Weak transcription	Brain Germinal Matrix	brain
37	chr6:34804400-34819600	Weak transcription	Right Ventricle	heart
38	chr6:34804400-34819800	Weak transcription	Brain Substantia Nigra	brain
39	chr6:34804400-34819800	Weak transcription	Colon Smooth Muscle	Colon
40	chr6:34804400-34820400	Weak transcription	Primary B cells from cord blood	blood
41	chr6:34804400-34823400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr6:34804400-34823600	Weak transcription	Fetal Kidney	kidney
43	chr6:34804400-34824000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr6:34804400-34824800	Weak transcription	Rectal Smooth Muscle	rectum
45	chr6:34804600-34819000	Weak transcription	Brain Hippocampus Middle	brain
46	chr6:34804600-34819000	Weak transcription	Spleen	Spleen
47	chr6:34804600-34819400	Weak transcription	H1 Cell Line	embryonic stem cell
48	chr6:34804600-34823400	Weak transcription	Primary T helper cells PMA-I stimulated	--
49	chr6:34804600-34823600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr6:34804600-34826600	Weak transcription	NHEK	skin

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