Variant report

Variant	rs3104031
Chromosome Location	chr8:104290190-104290191
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:104288724..104293754-chr8:104308710..104311344,7	MCF-7	breast:
2	chr8:104289531..104293502-chr8:104385386..104388063,3	MCF-7	breast:
3	chr8:104290160..104293505-chr8:104310027..104313255,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164930	Chromatin interaction
ENSG00000247081	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1138873	0.86[AMR][1000 genomes]
rs12541167	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12543038	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13275377	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13278361	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13278540	0.86[AMR][1000 genomes]
rs1353212	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1353213	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1403293	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1494278	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1522707	0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1522713	0.84[AMR][1000 genomes]
rs1568641	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16870243	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16870245	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16870249	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17205332	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17799604	0.80[AMR][1000 genomes]
rs1982892	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1982893	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2131860	0.84[AMR][1000 genomes]
rs2220825	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2270525	0.88[AMR][1000 genomes]
rs3104029	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3107646	0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3107648	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3107649	0.85[AMR][1000 genomes]
rs3116457	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3116462	0.93[AMR][1000 genomes]
rs3116464	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3116466	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3116468	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3133820	0.92[AMR][1000 genomes]
rs3133821	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3133824	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3133825	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34185273	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34201011	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34273148	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34337822	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv429931	chr8:104097396-104878014	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
2	esv1848810	chr8:104128496-104369288	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	esv1844303	chr8:104128696-104369090	Genic enhancers Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
4	nsv1015965	chr8:104192086-104361108	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
5	nsv1017326	chr8:104236193-104313235	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3104031	FLJ11184	trans	lymphoblastoid	RTeQTL

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:104284800-104295400	Weak transcription	Aorta	Aorta
2	chr8:104286400-104290400	Enhancers	HMEC	breast
3	chr8:104286400-104291800	Weak transcription	Left Ventricle	heart
4	chr8:104286600-104290800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr8:104286800-104290800	Enhancers	NHEK	skin
6	chr8:104287000-104290600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr8:104287000-104291200	Weak transcription	Primary hematopoietic stem cells	blood
8	chr8:104287000-104292200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr8:104287200-104290400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr8:104287200-104291600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr8:104288200-104291600	Weak transcription	Fetal Stomach	stomach
12	chr8:104288400-104292200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr8:104288400-104295400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr8:104288600-104293200	Weak transcription	NH-A	brain
15	chr8:104288800-104291400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr8:104288800-104293400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr8:104289000-104291200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr8:104289200-104302000	Weak transcription	Fetal Heart	heart
19	chr8:104289400-104290200	Enhancers	NHDF-Ad	bronchial
20	chr8:104289400-104290400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr8:104289600-104290200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr8:104289600-104290200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr8:104289600-104290400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr8:104289600-104290600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr8:104289600-104291600	Weak transcription	HSMM	muscle
26	chr8:104289600-104292000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr8:104289600-104292000	Enhancers	Muscle Satellite Cultured Cells	--
28	chr8:104289600-104292600	Enhancers	Osteobl	bone
29	chr8:104290000-104291400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links