Variant report

Variant	rs9883478
Chromosome Location	chr3:156395672-156395673
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:11)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:11 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:156395327-156396743	Hela-S3	cervix:	n/a	n/a
2	MXI1	chr3:156391527-156396530	IMR90	lung:	n/a	n/a
3	TBL1XR1	chr3:156395645-156395812	GM12878	blood:	n/a	n/a
4	STAT3	chr3:156395367-156395758	MCF10A-Er-Src	breast:	n/a	n/a
5	POLR2A	chr3:156395335-156396386	Hela-S3	cervix:	n/a	n/a
6	CHD1	chr3:156391341-156402336	IMR90	lung:	n/a	chr3:156392500-156392510
7	WRNIP1	chr3:156395466-156396370	GM12878	blood:	n/a	n/a
8	POLR2A	chr3:156395460-156396411	GM12878	blood:	n/a	n/a
9	POLR2A	chr3:156395031-156396698	A549	lung:	n/a	n/a
10	STAT3	chr3:156395622-156395750	MCF10A-Er-Src	breast:	n/a	n/a
11	POLR2A	chr3:156395634-156396497	GM12878	blood:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:156390449..156395705-chr3:156876136..156879645,10	MCF-7	breast:
2	chr3:156394981..156397696-chr3:156877359..156880145,3	MCF-7	breast:
3	chr3:156389452..156396391-chr3:156801976..156809206,19	MCF-7	breast:
4	chr3:156388866..156397270-chr3:156524172..156537549,71	MCF-7	breast:
5	chr3:156260735..156275674-chr3:156389736..156397850,44	K562	blood:
6	chr3:156390293..156396385-chr3:156542364..156548172,18	MCF-7	breast:
7	chr3:156264459..156269953-chr3:156392362..156396309,4	K562	blood:

No data

Variant related genes	Relation type
TIPARP-AS1	TF binding region
TIPARP	TF binding region
ENSG00000230457	Chromatin interaction
ENSG00000240875	Chromatin interaction
ENSG00000163660	Chromatin interaction
ENSG00000114850	Chromatin interaction
ENSG00000197980	Chromatin interaction
ENSG00000241135	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs13323819	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1397191	0.89[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16826731	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1991618	1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[AMR][1000 genomes]
rs28695987	1.00[AMR][1000 genomes]
rs4474996	1.00[MEX][hapmap]
rs56234943	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57472927	1.00[AMR][1000 genomes]
rs60659904	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61607068	1.00[AMR][1000 genomes]
rs6763606	1.00[AMR][1000 genomes]
rs6779040	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6797924	1.00[ASW][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873709	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873711	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7609776	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7610539	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7610749	1.00[AMR][1000 genomes]
rs7620352	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7620432	1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7651446	0.93[LWK][hapmap];0.92[MKK][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs9811311	1.00[MEX][hapmap]
rs9814160	1.00[AMR][1000 genomes]
rs9829961	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9834930	0.81[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9835232	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9837209	1.00[AMR][1000 genomes]
rs9841118	1.00[AMR][1000 genomes]
rs9853712	1.00[AMR][1000 genomes]
rs9855517	1.00[AMR][1000 genomes]
rs9866769	1.00[AMR][1000 genomes]
rs9870674	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9873467	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9873640	1.00[AMR][1000 genomes]
rs9883215	1.00[MEX][hapmap]

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	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156393000-156398800	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr3:156393600-156401800	Transcr. at gene 5' and 3'	Muscle Satellite Cultured Cells	--
3	chr3:156393800-156396600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr3:156394000-156395800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:156394000-156395800	Weak transcription	Gastric	stomach
6	chr3:156394000-156395800	Weak transcription	Pancreas	Pancrea
7	chr3:156394000-156395800	Weak transcription	Spleen	Spleen
8	chr3:156394000-156396800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr3:156394000-156436000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr3:156394200-156395800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr3:156394200-156395800	Weak transcription	Colonic Mucosa	Colon
12	chr3:156394200-156412600	Weak transcription	Placenta	Placenta
13	chr3:156394400-156395800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr3:156394400-156395800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr3:156394400-156395800	Weak transcription	Esophagus	oesophagus
16	chr3:156394400-156395800	Weak transcription	Fetal Lung	lung
17	chr3:156394400-156395800	Weak transcription	Fetal Muscle Leg	muscle
18	chr3:156394400-156395800	Weak transcription	Fetal Stomach	stomach
19	chr3:156394400-156395800	Enhancers	Skeletal Muscle Male	skeletal muscle
20	chr3:156394400-156398800	Weak transcription	Aorta	Aorta
21	chr3:156394400-156404800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
22	chr3:156394400-156411800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr3:156394600-156395800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr3:156394600-156395800	Transcr. at gene 5' and 3'	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr3:156394600-156395800	Enhancers	Brain Hippocampus Middle	brain
26	chr3:156394600-156395800	Enhancers	Brain Inferior Temporal Lobe	brain
27	chr3:156394600-156395800	Weak transcription	Fetal Brain Female	brain
28	chr3:156394600-156395800	Weak transcription	Fetal Intestine Small	intestine
29	chr3:156394600-156395800	Enhancers	Rectal Smooth Muscle	rectum
30	chr3:156394600-156396600	Transcr. at gene 5' and 3'	NHEK	skin
31	chr3:156394600-156402200	Enhancers	Fetal Heart	heart
32	chr3:156394600-156402800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr3:156394800-156395800	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr3:156394800-156395800	Weak transcription	Primary neutrophils fromperipheralblood	blood
35	chr3:156394800-156395800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr3:156394800-156395800	Weak transcription	Fetal Kidney	kidney
37	chr3:156394800-156396200	Weak transcription	Brain Germinal Matrix	brain
38	chr3:156394800-156396400	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr3:156394800-156400600	Genic enhancers	K562	blood
40	chr3:156394800-156403000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr3:156395000-156395800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr3:156395000-156395800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
43	chr3:156395000-156395800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr3:156395000-156396400	Transcr. at gene 5' and 3'	Breast Myoepithelial Primary Cells	Breast
45	chr3:156395000-156396400	Transcr. at gene 5' and 3'	A549	lung
46	chr3:156395000-156396600	Transcr. at gene 5' and 3'	Osteobl	bone
47	chr3:156395000-156398400	Weak transcription	Fetal Brain Male	brain
48	chr3:156395000-156400800	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr3:156395200-156395800	Transcr. at gene 5' and 3'	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr3:156395200-156395800	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--

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