Variant report

Variant	rs73559979
Chromosome Location	chr13:98082355-98082356
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:6)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:6 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr13:98081758-98082510	U87	brain:	n/a	n/a
2	POLR2A	chr13:98081686-98082647	U87	brain:	n/a	n/a
3	MAX	chr13:98081700-98082740	NB4	blood:	n/a	n/a
4	POLR2A	chr13:98081717-98082566	U87	brain:	n/a	n/a
5	POLR2A	chr13:98082340-98082409	MCF10A-Er-Src	breast:	n/a	n/a
6	USF1	chr13:98081969-98082370	SK-N-SH	brain:	n/a	n/a

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr13:98080619..98083140-chr13:98084232..98086579,3	K562	blood:
2	chr13:98081401..98083229-chr13:98085571..98087258,2	MCF-7	breast:
3	chr13:98082222..98082861-chr20:60641074..60641593,2	NB4	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-OXGR1-6	chr13:98081597-98086236	NONHSAT034832

No data

Variant related genes	Relation type
RAP2A	TF binding region
ENSG00000125249	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs16954171	1.00[AMR][1000 genomes]
rs1887562	1.00[AMR][1000 genomes]
rs57451800	1.00[AMR][1000 genomes]
rs74109435	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832694	chr13:97930561-98137882	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	esv1791802	chr13:98076911-98096882	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	esv1804050	chr13:98076911-98096882	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv1794802	chr13:98076911-98106042	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	esv1797132	chr13:98076911-98106042	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:98076400-98084800	Weak transcription	Esophagus	oesophagus
2	chr13:98079400-98084200	Weak transcription	Liver	Liver
3	chr13:98080400-98084400	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr13:98081000-98083800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr13:98081000-98084000	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr13:98081200-98082800	Active TSS	Pancreatic Islets	Pancreatic Islet
7	chr13:98081200-98083600	Enhancers	Dnd41	blood
8	chr13:98081600-98082400	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr13:98081600-98082400	Flanking Active TSS	Brain Germinal Matrix	brain
10	chr13:98081600-98082600	Active TSS	Brain Angular Gyrus	brain
11	chr13:98081600-98082600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
12	chr13:98081800-98082400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr13:98081800-98082400	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr13:98081800-98082400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr13:98081800-98082400	Flanking Active TSS	Fetal Kidney	kidney
16	chr13:98081800-98082400	Active TSS	Fetal Muscle Trunk	muscle
17	chr13:98081800-98082400	Flanking Active TSS	Fetal Stomach	stomach
18	chr13:98081800-98082400	Active TSS	Rectal Mucosa Donor 29	rectum
19	chr13:98081800-98082400	Active TSS	Rectal Smooth Muscle	rectum
20	chr13:98081800-98082400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
21	chr13:98081800-98082400	Active TSS	Stomach Smooth Muscle	stomach
22	chr13:98081800-98082400	Enhancers	HepG2	liver
23	chr13:98081800-98082400	Flanking Active TSS	HSMM	muscle
24	chr13:98081800-98082400	Flanking Active TSS	NH-A	brain
25	chr13:98081800-98082400	Flanking Active TSS	Osteobl	bone
26	chr13:98081800-98082600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr13:98081800-98082600	Active TSS	Fetal Brain Female	brain
28	chr13:98081800-98082800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
29	chr13:98081800-98082800	Flanking Active TSS	Fetal Lung	lung
30	chr13:98081800-98082800	Flanking Active TSS	NHDF-Ad	bronchial
31	chr13:98081800-98084200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr13:98081800-98084400	Enhancers	Fetal Heart	heart
33	chr13:98081800-98084400	Enhancers	Fetal Intestine Small	intestine
34	chr13:98082000-98082400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr13:98082000-98082400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr13:98082000-98082400	Active TSS	Cortex derived primary cultured neurospheres	brain
37	chr13:98082000-98082400	Active TSS	Brain Substantia Nigra	brain
38	chr13:98082000-98082400	Enhancers	Right Atrium	heart
39	chr13:98082000-98082400	Active TSS	Skeletal Muscle Male	skeletal muscle
40	chr13:98082000-98082600	Active TSS	Brain Anterior Caudate	brain
41	chr13:98082000-98082600	Active TSS	Psoas Muscle	Psoas
42	chr13:98082000-98082800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr13:98082000-98082800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr13:98082000-98082800	Enhancers	Spleen	Spleen
45	chr13:98082000-98084600	Enhancers	Fetal Intestine Large	intestine
46	chr13:98082200-98082400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr13:98082200-98082600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr13:98082200-98082600	Active TSS	Brain Cingulate Gyrus	brain
49	chr13:98082200-98082600	Active TSS	Brain Hippocampus Middle	brain
50	chr13:98082200-98082600	Active TSS	Brain Inferior Temporal Lobe	brain

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