Variant report

Variant	rs62265063
Chromosome Location	chr3:112737264-112737265
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:14)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:14 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:112737210-112739083	SK-N-MC	brain:	n/a	n/a
2	POLR2A	chr3:112736649-112739006	GM12878	blood:	n/a	n/a
3	POLR2A	chr3:112737122-112738647	GM12878	blood:	n/a	n/a
4	MXI1	chr3:112736597-112739325	SK-N-SH	brain:	n/a	n/a
5	POLR2A	chr3:112737243-112738878	GM12892	blood:	n/a	n/a
6	POLR2A	chr3:112737204-112738960	GM12892	blood:	n/a	n/a
7	REST	chr3:112737244-112739184	H1-neurons	neurons:	n/a	chr3:112738589-112738602
8	HCFC1	chr3:112736957-112739914	Hela-S3	cervix:	n/a	n/a
9	POLR2A	chr3:112736657-112738890	MCF10A-Er-Src	breast:	n/a	n/a
10	WRNIP1	chr3:112737062-112739088	GM12878	blood:	n/a	n/a
11	POLR2A	chr3:112737255-112737359	HUVEC	blood vessel:	n/a	n/a
12	POLR2A	chr3:112736810-112738741	K562	blood:	n/a	n/a
13	MTA3	chr3:112737172-112739173	GM12878	blood:	n/a	n/a
14	POLR2A	chr3:112737253-112737850	GM12891	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr3:112726403..112732813-chr3:112735056..112739637,9	MCF-7	breast:
2	chr3:112709706..112712038-chr3:112736780..112739124,2	MCF-7	breast:
3	chr3:112358855..112360949-chr3:112737036..112738900,2	K562	blood:
4	chr3:112358697..112360499-chr3:112735766..112739410,3	MCF-7	breast:
5	chr3:112730174..112733803-chr3:112737181..112739606,5	MCF-7	breast:
6	chr3:112708671..112711453-chr3:112735992..112738475,2	K562	blood:
7	chr3:112358680..112360592-chr3:112737016..112739347,2	MCF-7	breast:
8	chr3:112279739..112282135-chr3:112735331..112738696,3	K562	blood:
9	chr3:112734558..112737437-chr3:112738094..112740859,2	MCF-7	breast:
10	chr3:112708547..112711309-chr3:112736671..112738787,3	MCF-7	breast:
11	chr3:112708559..112710573-chr3:112736590..112739999,3	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GTPBP8-1	chr3:112737048-112738553	NONHSAT091210

No data

Variant related genes	Relation type
ENSG00000240057	TF binding region
ENSG00000163607	Chromatin interaction
ENSG00000163608	Chromatin interaction
ENSG00000272844	Chromatin interaction
ENSG00000138459	Chromatin interaction
ENSG00000240057	Chromatin interaction
ENSG00000144848	Chromatin interaction
ENSG00000091986	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs62263728	0.96[EUR][1000 genomes]
rs62263750	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62263755	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62265060	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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	esv1843165	chr3:112628205-112740145	Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112710400-112737400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:112722000-112737400	Weak transcription	Spleen	Spleen
3	chr3:112722000-112737600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:112722000-112737600	Weak transcription	Gastric	stomach
5	chr3:112722200-112737600	Weak transcription	Esophagus	oesophagus
6	chr3:112724600-112737400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr3:112725800-112737600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr3:112727000-112737400	Weak transcription	Lung	lung
9	chr3:112732200-112737600	Weak transcription	Ovary	ovary
10	chr3:112735000-112737400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr3:112735200-112737400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr3:112735800-112737400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
13	chr3:112736200-112737400	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr3:112736200-112738800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr3:112736400-112737400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr3:112736400-112737400	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr3:112736400-112737400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr3:112736400-112737400	Weak transcription	Left Ventricle	heart
19	chr3:112736400-112737400	Weak transcription	Thymus	Thymus
20	chr3:112736600-112737400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr3:112736600-112737400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr3:112736600-112737400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
23	chr3:112736600-112737400	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
24	chr3:112736600-112737400	Flanking Active TSS	HepG2	liver
25	chr3:112736600-112737600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
26	chr3:112736600-112737600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr3:112736600-112737600	Enhancers	Stomach Mucosa	stomach
28	chr3:112736600-112737600	Flanking Active TSS	HMEC	breast
29	chr3:112736600-112739000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr3:112736800-112737400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
31	chr3:112736800-112737400	Enhancers	Primary monocytes fromperipheralblood	blood
32	chr3:112736800-112737400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
33	chr3:112736800-112737400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr3:112736800-112737400	Enhancers	Primary T killer memory cells from peripheral blood	blood
35	chr3:112736800-112737400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
36	chr3:112736800-112737400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr3:112736800-112737400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr3:112736800-112737400	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
39	chr3:112736800-112737400	Enhancers	Sigmoid Colon	Sigmoid Colon
40	chr3:112736800-112737400	Flanking Active TSS	NH-A	brain
41	chr3:112736800-112737400	Flanking Active TSS	NHEK	skin
42	chr3:112736800-112737600	Enhancers	Primary B cells from peripheral blood	blood
43	chr3:112736800-112737600	Enhancers	Primary hematopoietic stem cells	blood
44	chr3:112736800-112737600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr3:112736800-112737600	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
46	chr3:112736800-112737600	Flanking Active TSS	Stomach Smooth Muscle	stomach
47	chr3:112736800-112737800	Flanking Active TSS	Brain Angular Gyrus	brain
48	chr3:112736800-112737800	Flanking Active TSS	Brain Anterior Caudate	brain
49	chr3:112736800-112737800	Flanking Active TSS	Fetal Heart	heart
50	chr3:112736800-112737800	Enhancers	Small Intestine	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links