Variant report

Variant	rs13110257
Chromosome Location	chr4:143488980-143488981
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:143488759..143491260-chr4:143536558..143538874,2	MCF-7	breast:
2	chr4:143488482..143490655-chr4:143513753..143516838,3	MCF-7	breast:
3	chr4:143484926..143487253-chr4:143488891..143490780,2	MCF-7	breast:
4	chr4:143479700..143482355-chr4:143488680..143491605,2	MCF-7	breast:
5	chr4:143391847..143398603-chr4:143487301..143496810,15	MCF-7	breast:
6	chr4:143389165..143391591-chr4:143488298..143490460,2	MCF-7	breast:
7	chr4:143391421..143397876-chr4:143484529..143495051,12	MCF-7	breast:

Variant related genes	Relation type
ENSG00000249806	Chromatin interaction
ENSG00000109452	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs13115686	0.95[AMR][1000 genomes]
rs35011079	0.92[AFR][1000 genomes]
rs35282189	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62328349	0.86[AMR][1000 genomes]
rs71608491	0.92[AFR][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	nsv498005	chr4:142515689-143502988	Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv461660	chr4:143437219-143538179	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv595605	chr4:143437219-143538179	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143484200-143489000	Weak transcription	Fetal Heart	heart
2	chr4:143485200-143489200	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr4:143486800-143489600	Active TSS	Primary T cells fromperipheralblood	blood
4	chr4:143486800-143489800	Active TSS	Primary T helper cells PMA-I stimulated	--
5	chr4:143486800-143489800	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr4:143487000-143489200	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
7	chr4:143487000-143489600	Active TSS	Primary T helper naive cells fromperipheralblood	blood
8	chr4:143487000-143489600	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
9	chr4:143487000-143489600	Active TSS	Primary T killer memory cells from peripheral blood	blood
10	chr4:143487000-143489600	Active TSS	Rectal Mucosa Donor 29	rectum
11	chr4:143487000-143489800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr4:143487000-143489800	Active TSS	Primary T helper naive cells from peripheral blood	blood
13	chr4:143487200-143489200	Active TSS	Primary T cells from cord blood	blood
14	chr4:143487400-143491800	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr4:143487600-143489200	Enhancers	NHEK	skin
16	chr4:143487600-143490000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr4:143487800-143489200	Active TSS	Primary T regulatory cells fromperipheralblood	blood
18	chr4:143487800-143489600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr4:143488000-143489000	Enhancers	Primary hematopoietic stem cells	blood
20	chr4:143488200-143489000	Active TSS	Duodenum Smooth Muscle	Duodenum
21	chr4:143488200-143489200	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr4:143488200-143489400	Active TSS	Rectal Smooth Muscle	rectum
23	chr4:143488200-143489600	Active TSS	Duodenum Mucosa	Duodenum
24	chr4:143488200-143489800	Active TSS	Rectal Mucosa Donor 31	rectum
25	chr4:143488400-143489000	Enhancers	NHDF-Ad	bronchial
26	chr4:143488400-143489200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr4:143488400-143489200	Enhancers	HUES6 Cell Line	embryonic stem cell
28	chr4:143488400-143489200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr4:143488400-143489400	Enhancers	HUES64 Cell Line	embryonic stem cell
30	chr4:143488400-143489400	Active TSS	Fetal Intestine Large	intestine
31	chr4:143488400-143489400	Enhancers	Fetal Lung	lung
32	chr4:143488400-143489600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr4:143488400-143489600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr4:143488400-143489600	Enhancers	Primary hematopoietic stem cells short term culture	blood
35	chr4:143488400-143489600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr4:143488400-143489600	Active TSS	Fetal Intestine Small	intestine
37	chr4:143488400-143489600	Active TSS	Stomach Smooth Muscle	stomach
38	chr4:143488400-143489800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr4:143488400-143489800	Active TSS	A549	lung
40	chr4:143488400-143490800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
41	chr4:143488400-143493400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
42	chr4:143488600-143489000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr4:143488600-143489000	Enhancers	Osteobl	bone
44	chr4:143488600-143489200	Enhancers	ES-I3 Cell Line	embryonic stem cell
45	chr4:143488600-143489400	Active TSS	Primary mononuclear cells fromperipheralblood	Blood
46	chr4:143488600-143489400	Active TSS	HMEC	breast
47	chr4:143488600-143489400	Enhancers	NHLF	lung
48	chr4:143488600-143489600	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
49	chr4:143488600-143490200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr4:143488600-143493400	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links