Variant report

Variant	rs73892919
Chromosome Location	chr3:196379508-196379509
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:196378698..196381049-chr3:196385890..196388101,2	MCF-7	breast:
2	chr3:196378804..196380603-chr3:196384778..196387182,2	MCF-7	breast:
3	chr3:196279002..196280829-chr3:196379473..196381210,2	K562	blood:
4	chr3:196363568..196366046-chr3:196378273..196380581,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11925828	1.00[EUR][1000 genomes]
rs11926701	1.00[EUR][1000 genomes]
rs59114665	1.00[EUR][1000 genomes]
rs60126648	1.00[EUR][1000 genomes]
rs73075031	1.00[EUR][1000 genomes]
rs73892931	1.00[EUR][1000 genomes]
rs7617002	1.00[EUR][1000 genomes]
rs7626116	1.00[EUR][1000 genomes]
rs9818888	1.00[EUR][1000 genomes]
rs9869292	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003066	chr3:196098763-196414159	Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv948681	chr3:196148055-197007546	Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers 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 target site	84 gene(s)	inside rSNPs	diseases
3	nsv1014692	chr3:196242249-196531824	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
4	nsv878187	chr3:196245603-196554790	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
5	nsv491864	chr3:196263064-196468533	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
6	nsv829828	chr3:196268121-196463641	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
7	nsv1010643	chr3:196288064-196788645	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer 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	63 gene(s)	inside rSNPs	diseases
8	nsv878188	chr3:196312124-196553867	Weak transcription Genic enhancers Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
9	nsv1003135	chr3:196348721-196738953	Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
10	nsv1013920	chr3:196370580-196452741	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
11	nsv1014526	chr3:196372422-196460169	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
12	nsv1008083	chr3:196374919-196460768	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
13	nsv536897	chr3:196374919-196460768	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:196367200-196393200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr3:196367600-196386800	Weak transcription	Gastric	stomach
3	chr3:196367600-196393200	Weak transcription	Brain Substantia Nigra	brain
4	chr3:196367800-196392800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr3:196367800-196393000	Weak transcription	Brain Anterior Caudate	brain
6	chr3:196367800-196397000	Weak transcription	Fetal Intestine Small	intestine
7	chr3:196369600-196388800	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr3:196370200-196381400	Genic enhancers	Primary monocytes fromperipheralblood	blood
9	chr3:196370200-196381800	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
10	chr3:196370200-196381800	Genic enhancers	Fetal Thymus	thymus
11	chr3:196370600-196381200	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr3:196371200-196383200	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr3:196371400-196390000	Weak transcription	Fetal Muscle Leg	muscle
14	chr3:196373000-196381000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr3:196373000-196392000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr3:196373400-196380200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr3:196373600-196383200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr3:196373600-196392000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr3:196375000-196380200	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr3:196375600-196380600	Genic enhancers	Primary T cells fromperipheralblood	blood
21	chr3:196375800-196379800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr3:196376000-196380200	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
23	chr3:196376000-196392000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr3:196376200-196384600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr3:196376200-196386600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr3:196376200-196387000	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr3:196376400-196392800	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr3:196377000-196392000	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr3:196377200-196379800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr3:196377400-196379600	Enhancers	HUVEC	blood vessel
31	chr3:196377400-196379800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr3:196377400-196380000	Enhancers	Skeletal Muscle Female	skeletal muscle
33	chr3:196377400-196380800	Enhancers	Adipose Nuclei	Adipose
34	chr3:196377600-196379600	Genic enhancers	Primary B cells from peripheral blood	blood
35	chr3:196377600-196379600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
36	chr3:196377600-196379600	Enhancers	Placenta	Placenta
37	chr3:196377600-196380000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
38	chr3:196377600-196380000	Enhancers	Skeletal Muscle Male	skeletal muscle
39	chr3:196377600-196380600	Enhancers	Right Atrium	heart
40	chr3:196377600-196392600	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr3:196377800-196380400	Enhancers	Left Ventricle	heart
42	chr3:196378000-196379600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr3:196378000-196379600	Weak transcription	Fetal Muscle Trunk	muscle
44	chr3:196378000-196389000	Weak transcription	Stomach Smooth Muscle	stomach
45	chr3:196378000-196389400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr3:196378000-196392000	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr3:196378000-196393000	Weak transcription	Brain Cingulate Gyrus	brain
48	chr3:196378200-196380400	Weak transcription	Primary T helper cells fromperipheralblood	blood
49	chr3:196378400-196379600	Strong transcription	GM12878-XiMat	blood
50	chr3:196378400-196380200	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links