Variant report

Variant	rs73546015
Chromosome Location	chr19:39799588-39799589
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:39798143..39803164-chr19:39817466..39820362,4	K562	blood:
2	chr19:39798629..39800349-chr19:39806035..39808301,3	MCF-7	breast:
3	chr19:39799131..39802909-chr19:39818026..39820396,4	K562	blood:
4	chr19:39797994..39800871-chr19:39800978..39802860,3	MCF-7	breast:
5	chr19:39797447..39800605-chr19:39809865..39811961,3	K562	blood:
6	chr19:39784806..39787413-chr19:39798680..39801396,2	MCF-7	breast:
7	chr19:39773610..39775882-chr19:39798355..39800719,2	K562	blood:
8	chr19:39798305..39800850-chr19:39800957..39803030,3	K562	blood:
9	chr19:39799179..39801218-chr19:39802185..39804255,2	MCF-7	breast:
10	chr17:57922985..57923748-chr19:39799303..39799914,2	MCF-7	breast:
11	chr19:39694353..39697175-chr19:39797763..39799707,2	K562	blood:
12	chr19:39798204..39800561-chr19:39803519..39805223,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000182393	Chromatin interaction
ENSG00000179751	Chromatin interaction
ENSG00000268262	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs17878918	1.00[EUR][1000 genomes]
rs28535763	1.00[EUR][1000 genomes]
rs28605012	1.00[EUR][1000 genomes]
rs56222183	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56904899	1.00[EUR][1000 genomes]
rs57536536	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58949744	1.00[AMR][1000 genomes]
rs60577443	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60840261	1.00[AMR][1000 genomes]
rs61112725	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61213828	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61595075	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61730567	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7250234	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7250913	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73544098	1.00[AMR][1000 genomes]
rs73546026	1.00[AMR][1000 genomes]
rs73546080	1.00[AMR][1000 genomes]
rs73547904	1.00[AMR][1000 genomes]
rs73547972	1.00[AMR][1000 genomes]
rs73553808	1.00[AMR][1000 genomes]
rs73553810	1.00[AMR][1000 genomes]
rs73553812	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432048	chr19:39572060-39850060	Bivalent/Poised TSS Bivalent Enhancer Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv833830	chr19:39709538-39837846	Enhancers Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
3	nsv911679	chr19:39735106-39924129	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	198 gene(s)	inside rSNPs	diseases
4	nsv1058514	chr19:39744112-39902580	Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	187 gene(s)	inside rSNPs	diseases
5	nsv911680	chr19:39792460-39924129	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	194 gene(s)	inside rSNPs	diseases
6	nsv911681	chr19:39797716-39856246	Strong transcription Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	29 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	chr19:39788800-39802200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
2	chr19:39789000-39801000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr19:39789600-39803000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr19:39789800-39801600	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr19:39790200-39802000	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr19:39790400-39809800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr19:39790600-39810000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr19:39796600-39801200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr19:39797200-39801000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr19:39797600-39801000	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr19:39798200-39809800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr19:39798400-39799600	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
13	chr19:39798400-39799600	Bivalent Enhancer	Fetal Intestine Small	intestine
14	chr19:39798400-39799600	Genic enhancers	Spleen	Spleen
15	chr19:39798600-39799600	Enhancers	Primary hematopoietic stem cells	blood
16	chr19:39798600-39803200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr19:39798600-39810800	Weak transcription	Right Atrium	heart
18	chr19:39798800-39799800	Bivalent Enhancer	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr19:39798800-39800200	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr19:39798800-39803600	Weak transcription	A549	lung
21	chr19:39798800-39807400	Strong transcription	Dnd41	blood
22	chr19:39798800-39810600	Weak transcription	Primary B cells from cord blood	blood
23	chr19:39799000-39799600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
24	chr19:39799000-39799800	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
25	chr19:39799000-39800800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr19:39799000-39801000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr19:39799000-39804200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr19:39799000-39810400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr19:39799200-39799800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr19:39799200-39799800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
31	chr19:39799200-39800000	Bivalent Enhancer	Fetal Brain Female	brain
32	chr19:39799200-39800800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr19:39799200-39801000	Weak transcription	Thymus	Thymus
34	chr19:39799200-39801200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr19:39799200-39801800	Weak transcription	Pancreas	Pancrea
36	chr19:39799200-39804200	Weak transcription	Gastric	stomach
37	chr19:39799200-39810200	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr19:39799400-39799600	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
39	chr19:39799400-39799600	Enhancers	H1 Cell Line	embryonic stem cell
40	chr19:39799400-39799600	Flanking Active TSS	H9 Cell Line	embryonic stem cell
41	chr19:39799400-39799600	Enhancers	HUES48 Cell Line	embryonic stem cell
42	chr19:39799400-39799600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
43	chr19:39799400-39799600	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr19:39799400-39799600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
45	chr19:39799400-39799600	Bivalent Enhancer	Stomach Mucosa	stomach
46	chr19:39799400-39800600	Flanking Active TSS	K562	blood
47	chr19:39799400-39801200	Weak transcription	Placenta	Placenta
48	chr19:39799400-39801600	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr19:39799400-39803800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr19:39799400-39804400	Weak transcription	Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links