Variant report

Variant	rs41276825
Chromosome Location	chr9:116359689-116359690
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:116357889..116361731-chr9:116362609..116366505,5	MCF-7	breast:
2	chr9:116358642..116361226-chr9:116416793..116418953,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs16908270	1.00[EUR][1000 genomes]
rs16908588	1.00[EUR][1000 genomes]
rs1961625	1.00[EUR][1000 genomes]
rs36123034	0.86[AFR][1000 genomes]
rs6478032	1.00[EUR][1000 genomes]
rs6478033	1.00[EUR][1000 genomes]
rs73546467	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530949	chr9:115821128-116487796	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv893747	chr9:116214058-116386438	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv466508	chr9:116244982-116362738	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv615215	chr9:116244982-116362738	Weak transcription Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv526579	chr9:116244982-116391162	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	nsv893748	chr9:116308709-116421786	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv430093	chr9:116330446-117325446	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
8	nsv466509	chr9:116356516-116396098	Weak transcription Enhancers Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
9	nsv615216	chr9:116356516-116396098	Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116348000-116361600	Weak transcription	Dnd41	blood
2	chr9:116352400-116363200	Weak transcription	Thymus	Thymus
3	chr9:116353200-116361000	Strong transcription	Primary neutrophils fromperipheralblood	blood
4	chr9:116353200-116361400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr9:116353400-116361400	Strong transcription	Primary T helper cells fromperipheralblood	blood
6	chr9:116353800-116360400	Strong transcription	Sigmoid Colon	Sigmoid Colon
7	chr9:116355800-116360800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr9:116355800-116360800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr9:116356400-116360400	Transcr. at gene 5' and 3'	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr9:116356400-116360600	Transcr. at gene 5' and 3'	Skeletal Muscle Male	skeletal muscle
11	chr9:116356400-116361200	Strong transcription	Monocytes-CD14+_RO01746	blood
12	chr9:116356600-116360800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr9:116356600-116361000	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr9:116356600-116362000	Strong transcription	Primary T cells fromperipheralblood	blood
15	chr9:116356800-116360400	Strong transcription	Primary T helper cells PMA-I stimulated	--
16	chr9:116356800-116360600	Strong transcription	Primary B cells from peripheral blood	blood
17	chr9:116356800-116361400	Transcr. at gene 5' and 3'	HUVEC	blood vessel
18	chr9:116356800-116362600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr9:116357000-116360600	Transcr. at gene 5' and 3'	Fetal Muscle Leg	muscle
20	chr9:116357000-116360800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr9:116357000-116361400	Strong transcription	Primary T cells from cord blood	blood
22	chr9:116357000-116361600	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr9:116357200-116360000	Transcr. at gene 5' and 3'	NHLF	lung
24	chr9:116357200-116360600	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr9:116357200-116361400	Strong transcription	Primary B cells from cord blood	blood
26	chr9:116357400-116360600	Transcr. at gene 5' and 3'	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr9:116357400-116360600	Transcr. at gene 5' and 3'	Fetal Muscle Trunk	muscle
28	chr9:116357400-116361000	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr9:116357400-116364800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
30	chr9:116357400-116364800	Weak transcription	Primary hematopoietic stem cells	blood
31	chr9:116357600-116359800	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr9:116357600-116360000	Strong transcription	NHEK	skin
33	chr9:116357600-116360200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
34	chr9:116357600-116360200	Transcr. at gene 5' and 3'	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr9:116357600-116360400	Strong transcription	HUES64 Cell Line	embryonic stem cell
36	chr9:116357600-116360400	Strong transcription	Fetal Brain Female	brain
37	chr9:116357600-116360400	Transcr. at gene 5' and 3'	NHDF-Ad	bronchial
38	chr9:116357600-116360600	Transcr. at gene 5' and 3'	Adipose Nuclei	Adipose
39	chr9:116357600-116360600	Transcr. at gene 5' and 3'	Stomach Smooth Muscle	stomach
40	chr9:116357600-116360800	Transcr. at gene 5' and 3'	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr9:116357600-116360800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr9:116357600-116362000	Weak transcription	Fetal Brain Male	brain
43	chr9:116357600-116362200	Weak transcription	A549	lung
44	chr9:116357800-116359800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr9:116357800-116360200	Strong transcription	HUES48 Cell Line	embryonic stem cell
46	chr9:116357800-116360200	Transcr. at gene 5' and 3'	Left Ventricle	heart
47	chr9:116357800-116360200	Strong transcription	Rectal Mucosa Donor 29	rectum
48	chr9:116357800-116360400	Transcr. at gene 5' and 3'	NH-A	brain
49	chr9:116357800-116360800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr9:116357800-116360800	Strong transcription	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links