Variant report

Variant	rs10033082
Chromosome Location	chr4:15402242-15402243
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:15401621..15404342-chr4:15426041..15427712,2	MCF-7	breast:
2	chr4:15396902..15399752-chr4:15401577..15403886,2	K562	blood:

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10000250	0.92[MEX][hapmap];0.88[YRI][hapmap]
rs10012928	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10022530	0.86[CEU][hapmap];1.00[MEX][hapmap];0.88[YRI][hapmap];0.81[AMR][1000 genomes]
rs10212846	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1024757	0.81[TSI][hapmap]
rs1024760	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4423869	0.86[CEU][hapmap]
rs4698110	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4698382	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6838330	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7665294	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7697373	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9993580	0.91[ASW][hapmap];0.86[CEU][hapmap];1.00[MEX][hapmap];0.88[YRI][hapmap];0.83[AMR][1000 genomes]
rs9993656	0.83[AFR][1000 genomes]
rs9994702	0.86[CEU][hapmap];1.00[MEX][hapmap];0.88[YRI][hapmap]
rs9995927	0.83[AMR][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	esv3448986	chr4:14928802-15805558	Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10033082	FAM200B	cis	parietal	SCAN

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15394400-15402400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr4:15399000-15402400	Enhancers	Hela-S3	cervix
3	chr4:15399000-15405200	Enhancers	Placenta Amnion	Placenta Amnion
4	chr4:15399200-15402400	Enhancers	NHEK	skin
5	chr4:15400000-15402400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr4:15400000-15402400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr4:15400000-15402800	Enhancers	Colon Smooth Muscle	Colon
8	chr4:15400000-15405400	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr4:15400200-15402800	Enhancers	Primary T cells from cord blood	blood
10	chr4:15400200-15403200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr4:15400200-15403200	Enhancers	Ovary	ovary
12	chr4:15400200-15403400	Enhancers	Primary B cells from peripheral blood	blood
13	chr4:15400200-15405000	Enhancers	Primary hematopoietic stem cells	blood
14	chr4:15400400-15402600	Enhancers	Primary T helper cells PMA-I stimulated	--
15	chr4:15400400-15403600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
16	chr4:15400600-15402400	Weak transcription	Lung	lung
17	chr4:15400600-15403600	Enhancers	Fetal Kidney	kidney
18	chr4:15400800-15402400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr4:15400800-15402400	Weak transcription	Spleen	Spleen
20	chr4:15401200-15402400	Enhancers	Primary B cells from cord blood	blood
21	chr4:15401200-15405400	Enhancers	Rectal Smooth Muscle	rectum
22	chr4:15401400-15402800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr4:15401400-15402800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr4:15401400-15405200	Enhancers	NHLF	lung
25	chr4:15401600-15402400	Enhancers	Osteobl	bone
26	chr4:15401600-15402600	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr4:15401600-15403000	Enhancers	Skeletal Muscle Female	skeletal muscle
28	chr4:15401600-15404000	Enhancers	HMEC	breast
29	chr4:15401600-15404200	Enhancers	HSMM	muscle
30	chr4:15401600-15405000	Enhancers	HSMMtube	muscle
31	chr4:15401600-15405200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr4:15401800-15402400	Enhancers	Primary T helper naive cells from peripheral blood	blood
33	chr4:15401800-15402600	Enhancers	Adipose Nuclei	Adipose
34	chr4:15401800-15403200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr4:15401800-15403200	Enhancers	Placenta	Placenta
36	chr4:15401800-15404000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
37	chr4:15401800-15404000	Enhancers	Fetal Stomach	stomach
38	chr4:15401800-15404800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr4:15402000-15402600	Enhancers	Primary T killer memory cells from peripheral blood	blood
40	chr4:15402000-15402600	Enhancers	Brain Anterior Caudate	brain
41	chr4:15402000-15402600	Enhancers	NHDF-Ad	bronchial
42	chr4:15402000-15402800	Enhancers	Primary T cells fromperipheralblood	blood
43	chr4:15402000-15402800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
44	chr4:15402000-15402800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
45	chr4:15402000-15403000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
46	chr4:15402000-15403400	Flanking Active TSS	Dnd41	blood
47	chr4:15402000-15403800	Enhancers	Fetal Thymus	thymus
48	chr4:15402000-15404000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
49	chr4:15402000-15404000	Enhancers	Fetal Lung	lung
50	chr4:15402000-15404200	Enhancers	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links