Variant report

Variant	rs12706337
Chromosome Location	chr7:121023469-121023470
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:121019447..121023769-chr7:121027958..121032895,6	MCF-7	breast:
2	chr7:121022125..121023837-chr7:121025372..121027321,2	MCF-7	breast:
3	chr7:120996529..120999253-chr7:121021354..121023479,2	K562	blood:
4	chr7:121014908..121018484-chr7:121022201..121025462,5	MCF-7	breast:
5	chr7:121023385..121024908-chr7:121069353..121072128,2	K562	blood:

Extended variants
information (count: 110 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:103)

rs_ID	r²[population]
rs10250624	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10250907	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11762263	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11762452	0.85[EUR][1000 genomes]
rs11768996	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11770098	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11771477	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12706336	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12706338	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];1.00[ASN][1000 genomes]
rs12706339	0.85[EUR][1000 genomes]
rs12706340	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12706341	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];1.00[ASN][1000 genomes]
rs12706342	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12706343	0.81[AMR][1000 genomes]
rs13232217	0.81[AMR][1000 genomes]
rs13232320	0.81[AMR][1000 genomes]
rs13238085	0.84[EUR][1000 genomes]
rs17143275	1.00[CHB][hapmap]
rs17143305	0.84[EUR][1000 genomes]
rs1803389	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1990446	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1990447	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2041490	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2240982	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2254591	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536153	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536155	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536156	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536157	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536158	0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2536159	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536160	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536163	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536164	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536165	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536166	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536167	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536168	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536170	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536173	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536174	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536175	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536176	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536178	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536179	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536184	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2536188	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2536190	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2536191	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2707460	0.93[CEU][hapmap];0.90[EUR][1000 genomes]
rs2707461	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707462	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2707463	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707465	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707467	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2707468	0.84[EUR][1000 genomes]
rs2707469	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2707470	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2707471	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs2707472	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2707473	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2707474	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2707475	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707476	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707477	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707478	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707479	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707480	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707481	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707482	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707491	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707492	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707496	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707503	0.90[ASN][1000 genomes]
rs2707504	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707505	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707507	1.00[CEU][hapmap];0.86[CHB][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2707516	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2908006	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2908010	0.94[ASN][1000 genomes]
rs2952564	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4727922	0.93[CEU][hapmap];0.85[EUR][1000 genomes]
rs4727925	0.81[AMR][1000 genomes]
rs4731011	0.81[AMR][1000 genomes]
rs56293108	0.97[ASN][1000 genomes]
rs57275855	0.94[ASN][1000 genomes]
rs60736586	0.97[ASN][1000 genomes]
rs62476334	0.83[ASN][1000 genomes]
rs6943521	0.85[ASN][1000 genomes]
rs6954568	0.88[ASN][1000 genomes]
rs6956903	0.93[ASN][1000 genomes]
rs6972181	0.94[ASN][1000 genomes]
rs6972247	0.88[ASN][1000 genomes]
rs71571022	0.85[EUR][1000 genomes]
rs73440208	0.94[ASN][1000 genomes]
rs73440215	0.94[ASN][1000 genomes]
rs73440221	0.97[ASN][1000 genomes]
rs73720406	0.97[ASN][1000 genomes]
rs7780789	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7782648	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7785478	1.00[ASN][1000 genomes]
rs7792993	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs997782	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025430	chr7:120638930-121179289	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv1034353	chr7:120818382-121040576	Enhancers Bivalent Enhancer Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv1026322	chr7:120841937-121188037	Weak transcription Strong transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv539102	chr7:120841937-121188037	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Weak transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	esv2755350	chr7:120848049-121119049	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
6	nsv1032054	chr7:120926379-121432971	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
7	nsv539103	chr7:120926379-121432971	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12706337	FAM3C	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:120970600-121025400	Weak transcription	Spleen	Spleen
2	chr7:120979800-121034800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr7:120984200-121035000	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr7:120986200-121029600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr7:120986400-121026000	Weak transcription	Colonic Mucosa	Colon
6	chr7:120986400-121026000	Weak transcription	Psoas Muscle	Psoas
7	chr7:120993000-121025600	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr7:120995600-121026200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr7:121000000-121024200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr7:121000800-121029600	Weak transcription	Brain Angular Gyrus	brain
11	chr7:121001000-121026000	Weak transcription	Aorta	Aorta
12	chr7:121002200-121025400	Weak transcription	Right Ventricle	heart
13	chr7:121002400-121025800	Weak transcription	Brain Hippocampus Middle	brain
14	chr7:121005000-121024000	Weak transcription	Stomach Mucosa	stomach
15	chr7:121005000-121030600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr7:121005200-121035000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr7:121008600-121025400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr7:121009800-121025400	Weak transcription	Right Atrium	heart
19	chr7:121010200-121034600	Weak transcription	Fetal Brain Male	brain
20	chr7:121010400-121023800	Weak transcription	Fetal Intestine Small	intestine
21	chr7:121010400-121025400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr7:121013200-121024600	Weak transcription	Colon Smooth Muscle	Colon
23	chr7:121013600-121024200	Strong transcription	HSMM	muscle
24	chr7:121014000-121023600	Strong transcription	NH-A	brain
25	chr7:121014000-121023800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr7:121015800-121025600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr7:121016000-121024000	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr7:121016000-121035400	Weak transcription	Rectal Smooth Muscle	rectum
29	chr7:121016200-121025000	Weak transcription	Brain Anterior Caudate	brain
30	chr7:121016200-121035000	Weak transcription	Fetal Stomach	stomach
31	chr7:121016200-121035600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr7:121016400-121026000	Weak transcription	NHLF	lung
33	chr7:121016600-121024200	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr7:121017200-121026000	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr7:121017600-121032400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr7:121018000-121024600	Weak transcription	Pancreas	Pancrea
37	chr7:121018000-121025600	Weak transcription	Fetal Kidney	kidney
38	chr7:121018000-121025800	Weak transcription	Brain Cingulate Gyrus	brain
39	chr7:121018000-121025800	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr7:121018000-121035400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
41	chr7:121018400-121031600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr7:121018600-121024000	Weak transcription	Left Ventricle	heart
43	chr7:121018600-121024000	Weak transcription	Lung	lung
44	chr7:121018600-121024800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr7:121018600-121025000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr7:121018600-121025400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr7:121018600-121025600	Weak transcription	Adipose Nuclei	Adipose
48	chr7:121018600-121025800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr7:121018600-121032400	Weak transcription	H1 Cell Line	embryonic stem cell
50	chr7:121018600-121032400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links