Variant report

Variant	rs114962680
Chromosome Location	chr5:53177651-53177652
allele	G/T
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	chr5:53177358-53177977	K562	blood:	n/a	n/a

Variant related genes	Relation type
ENSG00000272416	TF binding region

Extended variants
information (count: 11 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752745	chr5:52422063-53343529	Transcr. at gene 5' and 3' ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1032632	chr5:52667145-53655624	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised 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	29 gene(s)	inside rSNPs	diseases
3	nsv1032504	chr5:52908394-53398435	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
4	nsv537763	chr5:52908394-53398435	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
5	nsv830298	chr5:52973912-53193398	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
6	nsv533778	chr5:53092696-53284566	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
7	nsv1019194	chr5:53104869-53178957	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv513237	chr5:53175971-53179281	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
9	esv3332928	chr5:53176220-53178243	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	n/a
10	esv2607867	chr5:53176357-53177933	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	n/a
11	esv3371556	chr5:53176695-53177743	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:53169600-53178000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr5:53170200-53181800	Weak transcription	Spleen	Spleen
3	chr5:53173600-53178000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr5:53173600-53178000	Weak transcription	NHLF	lung
5	chr5:53173600-53178400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr5:53173800-53178400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr5:53173800-53178400	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr5:53173800-53178600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr5:53173800-53227800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr5:53174000-53178200	Weak transcription	Osteobl	bone
11	chr5:53174200-53178600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr5:53174200-53186400	Weak transcription	Left Ventricle	heart
13	chr5:53174400-53211000	Weak transcription	K562	blood
14	chr5:53175400-53183400	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr5:53175400-53186400	Weak transcription	Primary T cells from cord blood	blood
16	chr5:53176000-53178000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr5:53176000-53178400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr5:53176000-53187200	Weak transcription	Esophagus	oesophagus
19	chr5:53176600-53180800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr5:53176600-53189000	Weak transcription	Fetal Intestine Large	intestine
21	chr5:53176600-53190400	Weak transcription	Primary hematopoietic stem cells	blood
22	chr5:53176800-53179200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr5:53176800-53181000	Enhancers	ES-I3 Cell Line	embryonic stem cell
24	chr5:53177000-53212800	Weak transcription	Fetal Intestine Small	intestine
25	chr5:53177200-53178800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
26	chr5:53177200-53180800	Enhancers	HUES64 Cell Line	embryonic stem cell
27	chr5:53177400-53178000	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr5:53177400-53178600	Enhancers	iPS-20b Cell Line	embryonic stem cell
29	chr5:53177400-53178800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr5:53177400-53179200	Enhancers	NHDF-Ad	bronchial
31	chr5:53177400-53179400	Enhancers	H1 Cell Line	embryonic stem cell
32	chr5:53177400-53181000	Enhancers	HUES6 Cell Line	embryonic stem cell
33	chr5:53177400-53188600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr5:53177600-53179200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
35	chr5:53177600-53179200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr5:53177600-53179600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr5:53177600-53180800	Enhancers	HUES48 Cell Line	embryonic stem cell
38	chr5:53177600-53182400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr5:53177600-53189000	Weak transcription	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links