Variant report

Variant	rs9864630
Chromosome Location	chr3:113003073-113003074
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:113002259-113003154	A549	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:112359608..112361417-chr3:113001269..113003641,2	MCF-7	breast:

Variant related genes	Relation type
BOC	TF binding region
ENSG00000091986	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10511324	0.90[EUR][1000 genomes]
rs13326562	0.81[EUR][1000 genomes]
rs1499898	0.82[AFR][1000 genomes]
rs16860720	0.82[AFR][1000 genomes]
rs16860734	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28679287	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3995908	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6438134	0.95[EUR][1000 genomes]
rs7652801	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9288980	0.90[EUR][1000 genomes]
rs9811168	0.81[EUR][1000 genomes]
rs9819129	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9820139	0.82[AFR][1000 genomes]
rs9820627	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9823770	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9831049	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9831364	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9831793	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9832953	0.86[AFR][1000 genomes]
rs9836199	0.81[EUR][1000 genomes]
rs9837357	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9840485	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9851183	0.81[EUR][1000 genomes]
rs9853439	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9863114	0.81[EUR][1000 genomes]
rs9869371	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv829677	chr3:112857075-113038987	Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	nsv1013506	chr3:112890608-113680951	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	nsv877348	chr3:112914756-113012509	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112984800-113016400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr3:112990400-113036000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr3:112990600-113004000	Weak transcription	NHEK	skin
4	chr3:112991800-113006400	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr3:112993800-113036000	Weak transcription	Right Ventricle	heart
6	chr3:112995200-113016000	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr3:112995200-113022400	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr3:112995400-113006000	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr3:112995400-113006200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr3:112995400-113024000	Weak transcription	Aorta	Aorta
11	chr3:112995400-113035800	Weak transcription	Lung	lung
12	chr3:112995600-113006400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr3:112995600-113008400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:112995800-113004000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr3:112995800-113006600	Weak transcription	Fetal Brain Male	brain
16	chr3:112995800-113013000	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr3:112995800-113035800	Weak transcription	Thymus	Thymus
18	chr3:112996000-113005800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:112996000-113025400	Weak transcription	Small Intestine	intestine
20	chr3:112996200-113004400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr3:112996200-113005800	Weak transcription	Osteobl	bone
22	chr3:112996200-113034400	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr3:112996400-113003600	Weak transcription	Brain Angular Gyrus	brain
24	chr3:112996400-113004600	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr3:112996400-113046400	Weak transcription	Duodenum Mucosa	Duodenum
26	chr3:112996600-113004200	Strong transcription	Colon Smooth Muscle	Colon
27	chr3:112996800-113003200	Strong transcription	Esophagus	oesophagus
28	chr3:112996800-113004200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr3:112997000-113003200	Strong transcription	Fetal Brain Female	brain
30	chr3:112997000-113003400	Strong transcription	Cortex derived primary cultured neurospheres	brain
31	chr3:112997000-113004000	Strong transcription	Duodenum Smooth Muscle	Duodenum
32	chr3:112997000-113004000	Strong transcription	Fetal Muscle Leg	muscle
33	chr3:112997000-113005200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr3:112997000-113006200	Strong transcription	Fetal Intestine Small	intestine
35	chr3:112997200-113003600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr3:112997200-113005400	Strong transcription	Rectal Smooth Muscle	rectum
37	chr3:112997200-113036200	Weak transcription	Spleen	Spleen
38	chr3:112997400-113003800	Strong transcription	Stomach Smooth Muscle	stomach
39	chr3:112997400-113004000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr3:112997400-113004400	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr3:112997400-113006200	Strong transcription	Fetal Stomach	stomach
42	chr3:112997600-113004600	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr3:112997800-113005200	Weak transcription	Brain Hippocampus Middle	brain
44	chr3:112998200-113005000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr3:112998400-113004000	Strong transcription	Fetal Muscle Trunk	muscle
46	chr3:112998600-113003200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr3:112998600-113036000	Weak transcription	Gastric	stomach
48	chr3:112999600-113004200	Strong transcription	Brain Substantia Nigra	brain
49	chr3:113000000-113003400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr3:113000000-113003600	Weak transcription	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links