Variant report

Variant	rs3761080
Chromosome Location	chr19:19301489-19301490
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr19:19301396-19301669	HepG2	liver:	n/a	n/a

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:19300955..19305521-chr19:19311679..19315747,10	MCF-7	breast:
2	chr19:19296821..19298878-chr19:19300164..19303100,3	MCF-7	breast:
3	chr19:19301203..19304689-chr19:19429627..19432561,5	MCF-7	breast:
4	chr19:19294693..19300778-chr19:19301483..19306941,9	K562	blood:
5	chr19:19286456..19293705-chr19:19298673..19304955,13	K562	blood:
6	chr19:19142422..19145596-chr19:19300959..19304249,3	K562	blood:
7	chr19:19300744..19305499-chr19:19311426..19319217,10	K562	blood:
8	chr19:19299448..19305567-chr19:19306959..19319217,21	K562	blood:

No data

Variant related genes	Relation type
RFXANK	TF binding region
MEF2BNB	TF binding region
ENSG00000064607	Chromatin interaction
ENSG00000105705	Chromatin interaction
ENSG00000254901	Chromatin interaction
ENSG00000064489	Chromatin interaction
ENSG00000184162	Chromatin interaction
ENSG00000105676	Chromatin interaction
ENSG00000064490	Chromatin interaction
ENSG00000129933	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10403859	0.88[EUR][1000 genomes]
rs10406659	0.84[EUR][1000 genomes]
rs10411761	0.88[EUR][1000 genomes]
rs10418279	0.84[EUR][1000 genomes]
rs10424369	0.88[EUR][1000 genomes]
rs11667950	0.88[EUR][1000 genomes]
rs11668677	0.88[EUR][1000 genomes]
rs11668734	0.88[EUR][1000 genomes]
rs11671527	0.88[EUR][1000 genomes]
rs11672216	0.88[EUR][1000 genomes]
rs13345554	0.88[EUR][1000 genomes]
rs2228600	0.88[EUR][1000 genomes]
rs2238674	0.92[EUR][1000 genomes]
rs2283627	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28393849	0.84[EUR][1000 genomes]
rs28409009	0.84[EUR][1000 genomes]
rs28446016	0.84[EUR][1000 genomes]
rs28508263	0.84[EUR][1000 genomes]
rs28510494	0.84[EUR][1000 genomes]
rs28541794	0.84[EUR][1000 genomes]
rs28838696	0.84[EUR][1000 genomes]
rs34673002	0.88[EUR][1000 genomes]
rs35583425	0.88[EUR][1000 genomes]
rs73922843	0.88[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	nsv833779	chr19:19163492-19313091	Enhancers Strong transcription Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv911303	chr19:19256870-19505087	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv933613	chr19:19291456-19312244	Enhancers Flanking Active TSS Genic enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv961283	chr19:19293486-19312277	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:19280800-19301600	Weak transcription	NHEK	skin
2	chr19:19281600-19302000	Weak transcription	NH-A	brain
3	chr19:19281600-19302200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr19:19282000-19301600	Weak transcription	Fetal Heart	heart
5	chr19:19283400-19301600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr19:19283400-19302000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr19:19283400-19302200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr19:19283600-19301800	Weak transcription	HSMMtube	muscle
9	chr19:19284200-19302000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr19:19285600-19301800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr19:19286000-19302000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr19:19291800-19301600	Weak transcription	A549	lung
13	chr19:19292800-19301600	Weak transcription	HMEC	breast
14	chr19:19293600-19301800	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr19:19293600-19301800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr19:19293600-19301800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr19:19293600-19302000	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr19:19293600-19302000	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr19:19293600-19302200	Weak transcription	Aorta	Aorta
20	chr19:19295800-19301800	Weak transcription	Fetal Kidney	kidney
21	chr19:19296400-19301600	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr19:19297800-19301600	Weak transcription	K562	blood
23	chr19:19298000-19301600	Weak transcription	Fetal Lung	lung
24	chr19:19298000-19301600	Weak transcription	HSMM	muscle
25	chr19:19298000-19301600	Weak transcription	NHLF	lung
26	chr19:19298000-19302000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr19:19298000-19302000	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr19:19299200-19302000	Enhancers	Primary T cells fromperipheralblood	blood
29	chr19:19299200-19302200	Enhancers	Spleen	Spleen
30	chr19:19299400-19301600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
31	chr19:19299400-19302000	Enhancers	Primary T helper naive cells from peripheral blood	blood
32	chr19:19299400-19302000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
33	chr19:19299600-19301600	Enhancers	Primary T helper cells PMA-I stimulated	--
34	chr19:19299800-19302000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
35	chr19:19300000-19301600	Enhancers	Brain Inferior Temporal Lobe	brain
36	chr19:19300000-19301600	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr19:19300000-19301600	Enhancers	Skeletal Muscle Female	skeletal muscle
38	chr19:19300000-19301800	Enhancers	Primary T helper cells fromperipheralblood	blood
39	chr19:19300000-19301800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
40	chr19:19300000-19301800	Enhancers	Adipose Nuclei	Adipose
41	chr19:19300000-19301800	Enhancers	Liver	Liver
42	chr19:19300000-19301800	Enhancers	Brain Germinal Matrix	brain
43	chr19:19300000-19302000	Enhancers	Primary B cells from peripheral blood	blood
44	chr19:19300000-19302000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
45	chr19:19300000-19302000	Enhancers	Brain Angular Gyrus	brain
46	chr19:19300000-19302000	Enhancers	Left Ventricle	heart
47	chr19:19300000-19302000	Enhancers	Pancreas	Pancrea
48	chr19:19300000-19302200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
49	chr19:19300200-19301600	Enhancers	Duodenum Mucosa	Duodenum
50	chr19:19300200-19301800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links