Variant report

Variant	rs10102473
Chromosome Location	chr8:66565403-66565404
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:66556666..66559815-chr8:66565275..66567361,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000066855	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs1022252	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10504388	0.81[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs10808746	0.95[CHB][hapmap];0.81[CHD][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs11775485	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11996845	0.90[AFR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12156235	1.00[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs13275737	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1473600	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16932226	1.00[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs2048648	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2175810	0.86[CHB][hapmap]
rs4236943	1.00[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs4737220	0.90[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap]
rs4737740	1.00[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs4737742	0.89[AFR][1000 genomes]
rs6983230	0.81[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.96[TSI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6991731	0.86[CHB][hapmap]
rs7006732	0.81[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.96[TSI][hapmap];0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7011819	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7833031	0.95[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs7842162	0.86[CHB][hapmap]
rs9298104	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs953593	0.81[ASN][1000 genomes]
rs9643393	0.90[AFR][1000 genomes];0.92[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761434	chr8:65578467-66567678	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10102473	ARMC1	cis	parietal	SCAN
rs10102473	ARMC1	cis	cerebellum	SCAN
rs10102473	ARMC1	cis	lymphoblastoid	seeQTL
rs10102473	MTFR1	cis	cerebellum	SCAN

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:66558000-66567000	Weak transcription	Gastric	stomach
2	chr8:66558000-66567200	Weak transcription	Adipose Nuclei	Adipose
3	chr8:66558000-66567400	Weak transcription	Ovary	ovary
4	chr8:66558000-66568800	Weak transcription	Fetal Intestine Small	intestine
5	chr8:66558000-66569400	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr8:66558000-66569600	Weak transcription	Esophagus	oesophagus
7	chr8:66558000-66571000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr8:66558000-66571000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr8:66558000-66571000	Weak transcription	Fetal Lung	lung
10	chr8:66558000-66571000	Weak transcription	Fetal Muscle Trunk	muscle
11	chr8:66558000-66571000	Weak transcription	Fetal Muscle Leg	muscle
12	chr8:66558000-66571000	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr8:66558000-66571000	Weak transcription	Thymus	Thymus
14	chr8:66558000-66571000	Weak transcription	HSMMtube	muscle
15	chr8:66558000-66571000	Weak transcription	NH-A	brain
16	chr8:66558000-66571200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr8:66558000-66571200	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr8:66558000-66571600	Weak transcription	Lung	lung
19	chr8:66558000-66582400	Weak transcription	Placenta	Placenta
20	chr8:66558000-66583400	Weak transcription	Aorta	Aorta
21	chr8:66558000-66585200	Weak transcription	Left Ventricle	heart
22	chr8:66558200-66569600	Weak transcription	Fetal Stomach	stomach
23	chr8:66558200-66570600	Weak transcription	Fetal Intestine Large	intestine
24	chr8:66558200-66570800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr8:66558200-66570800	Weak transcription	Primary B cells from cord blood	blood
26	chr8:66558200-66570800	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr8:66558200-66571000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr8:66558200-66571000	Weak transcription	HSMM	muscle
29	chr8:66558200-66571200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr8:66558200-66573600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr8:66558400-66567200	Weak transcription	Stomach Mucosa	stomach
32	chr8:66558400-66567600	Weak transcription	NHDF-Ad	bronchial
33	chr8:66558400-66568800	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr8:66558400-66569400	Weak transcription	Duodenum Mucosa	Duodenum
35	chr8:66558400-66569800	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr8:66558400-66570000	Weak transcription	Osteobl	bone
37	chr8:66558400-66571000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr8:66558400-66606800	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr8:66558600-66566800	Weak transcription	A549	lung
40	chr8:66558600-66567000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr8:66558600-66569000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
42	chr8:66558600-66569800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr8:66558600-66570000	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr8:66558600-66570800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr8:66558600-66570800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr8:66558600-66571000	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr8:66558600-66571200	Weak transcription	Brain Hippocampus Middle	brain
48	chr8:66558800-66569400	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr8:66558800-66571000	Weak transcription	HMEC	breast
50	chr8:66558800-66571200	Weak transcription	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links