Variant report

Variant	rs4808945
Chromosome Location	chr19:19433752-19433753
allele	C/T
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:6)
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	chr19:19433733-19434003	HepG2	liver:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr19:19413906..19419021-chr19:19429875..19434162,7	K562	blood:
2	chr19:19431266..19434636-chr19:19448982..19451713,3	MCF-7	breast:
3	chr19:19431326..19434090-chr19:19651434..19653911,2	K562	blood:
4	chr19:19312433..19314874-chr19:19432298..19433867,2	MCF-7	breast:
5	chr19:19433505..19435144-chr19:19437527..19440100,2	MCF-7	breast:
6	chr19:19430044..19433811-chr19:19447380..19449569,3	K562	blood:

No data

Variant related genes	Relation type
SUGP1	TF binding region
ENSG00000105705	Chromatin interaction
ENSG00000184162	Chromatin interaction
ENSG00000129933	Chromatin interaction
ENSG00000160161	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs1005372	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1989868	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2043333	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2905420	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2965192	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4808192	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8102249	1.00[AFR][1000 genomes];1.00[EUR][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	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
2	nsv911305	chr19:19303802-19663850	Genic enhancers Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv1056419	chr19:19421218-19510611	Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:19432600-19433800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr19:19432600-19445400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr19:19432800-19433800	Weak transcription	Fetal Intestine Large	intestine
4	chr19:19432800-19433800	Weak transcription	Fetal Lung	lung
5	chr19:19432800-19434000	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr19:19432800-19434000	Genic enhancers	Fetal Intestine Small	intestine
7	chr19:19432800-19434000	Weak transcription	Fetal Kidney	kidney
8	chr19:19432800-19434200	Enhancers	Primary B cells from peripheral blood	blood
9	chr19:19432800-19434200	Enhancers	Primary T cells fromperipheralblood	blood
10	chr19:19432800-19434400	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr19:19432800-19434400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr19:19432800-19434400	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr19:19432800-19434400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr19:19432800-19434400	Weak transcription	Brain Anterior Caudate	brain
15	chr19:19432800-19434400	Weak transcription	Gastric	stomach
16	chr19:19432800-19434400	Weak transcription	Psoas Muscle	Psoas
17	chr19:19432800-19434400	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr19:19432800-19434400	Weak transcription	HMEC	breast
19	chr19:19432800-19434400	Weak transcription	HSMM	muscle
20	chr19:19432800-19434400	Weak transcription	NHEK	skin
21	chr19:19432800-19434400	Weak transcription	Osteobl	bone
22	chr19:19432800-19434600	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr19:19432800-19434600	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr19:19432800-19434600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr19:19432800-19434600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr19:19432800-19434600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
27	chr19:19432800-19434600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
28	chr19:19432800-19434600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr19:19432800-19434600	Enhancers	Fetal Brain Male	brain
30	chr19:19432800-19434600	Weak transcription	Ovary	ovary
31	chr19:19432800-19434800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr19:19432800-19434800	Weak transcription	Aorta	Aorta
33	chr19:19432800-19434800	Weak transcription	HSMMtube	muscle
34	chr19:19432800-19435000	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr19:19432800-19435000	Weak transcription	NHDF-Ad	bronchial
36	chr19:19432800-19435400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
37	chr19:19432800-19436800	Weak transcription	Small Intestine	intestine
38	chr19:19432800-19438400	Weak transcription	A549	lung
39	chr19:19432800-19445400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr19:19432800-19447400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr19:19433000-19434000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
42	chr19:19433000-19434400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr19:19433200-19434400	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr19:19433200-19434400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr19:19433200-19434400	Enhancers	Pancreas	Pancrea
46	chr19:19433200-19434800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr19:19433200-19435400	Genic enhancers	Fetal Muscle Trunk	muscle
48	chr19:19433200-19435600	Genic enhancers	Thymus	Thymus
49	chr19:19433200-19439000	Genic enhancers	Primary neutrophils fromperipheralblood	blood
50	chr19:19433200-19452800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links