Variant report

Variant	rs61958529
Chromosome Location	chr13:51795784-51795785
allele	C/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	E2F4	chr13:51795763-51795934	MCF10A-Er-Src	breast:	n/a	n/a
2	NRF1	chr13:51795775-51796758	SK-N-SH	brain:	n/a	chr13:51796174-51796183
3	MYC	chr13:51795778-51796333	MCF10A-Er-Src	breast:	n/a	chr13:51796175-51796185

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SERPINE3-4	chr13:51795151-51798286	ncRnaDb_ncrna_FR376720_3

Variant related genes	Relation type
FAM124A	TF binding region

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs10492519	0.86[ASN][1000 genomes]
rs12867510	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832610	chr13:51636661-51822106	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv832611	chr13:51766472-51938314	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	esv3332869	chr13:51795701-51797799	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Enhancers Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51792800-51795800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr13:51794800-51795800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr13:51795200-51795800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr13:51795200-51796000	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
5	chr13:51795400-51795800	Flanking Bivalent TSS/Enh	ES-I3 Cell Line	embryonic stem cell
6	chr13:51795400-51795800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr13:51795400-51795800	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr13:51795400-51795800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr13:51795400-51796000	Bivalent Enhancer	Fetal Thymus	thymus
10	chr13:51795400-51796200	Bivalent Enhancer	Stomach Mucosa	stomach
11	chr13:51795600-51795800	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
12	chr13:51795600-51795800	Flanking Active TSS	H9 Cell Line	embryonic stem cell
13	chr13:51795600-51795800	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr13:51795600-51795800	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
15	chr13:51795600-51795800	Bivalent Enhancer	Primary B cells from peripheral blood	blood
16	chr13:51795600-51795800	Bivalent Enhancer	Primary hematopoietic stem cells	blood
17	chr13:51795600-51795800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells short term culture	blood
18	chr13:51795600-51795800	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
19	chr13:51795600-51795800	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
20	chr13:51795600-51795800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr13:51795600-51795800	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr13:51795600-51795800	Enhancers	Colon Smooth Muscle	Colon
23	chr13:51795600-51795800	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
24	chr13:51795600-51795800	Enhancers	Fetal Brain Male	brain
25	chr13:51795600-51795800	Flanking Active TSS	Fetal Brain Female	brain
26	chr13:51795600-51795800	Bivalent Enhancer	Fetal Intestine Small	intestine
27	chr13:51795600-51795800	Enhancers	Pancreatic Islets	Pancreatic Islet
28	chr13:51795600-51795800	Bivalent Enhancer	Fetal Muscle Leg	muscle
29	chr13:51795600-51795800	Enhancers	Right Ventricle	heart
30	chr13:51795600-51795800	Flanking Active TSS	Stomach Smooth Muscle	stomach
31	chr13:51795600-51795800	Bivalent Enhancer	Dnd41	blood
32	chr13:51795600-51795800	Bivalent Enhancer	NHLF	lung
33	chr13:51795600-51796000	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
34	chr13:51795600-51796000	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
35	chr13:51795600-51796000	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
36	chr13:51795600-51796000	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
37	chr13:51795600-51796000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr13:51795600-51796000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr13:51795600-51796000	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
40	chr13:51795600-51796000	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
41	chr13:51795600-51796000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
42	chr13:51795600-51796000	Bivalent Enhancer	Fetal Lung	lung
43	chr13:51795600-51796000	Enhancers	Pancreas	Pancrea
44	chr13:51795600-51796000	Enhancers	Rectal Smooth Muscle	rectum
45	chr13:51795600-51796200	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
46	chr13:51795600-51796200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr13:51795600-51796200	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
48	chr13:51795600-51796200	Active TSS	Esophagus	oesophagus
49	chr13:51795600-51796400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr13:51795600-51797200	Active TSS	A549	lung

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