Variant report

Variant	rs7027139
Chromosome Location	chr9:33509492-33509493
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:33508653..33511293-chr9:33522679..33524589,3	MCF-7	breast:
2	chr9:33506883..33509573-chr9:33522858..33524863,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000230453	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10465079	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10813986	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10971528	1.00[EUR][1000 genomes]
rs10971529	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10971531	0.84[ASN][1000 genomes]
rs10971532	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10971533	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10971537	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10971539	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10971542	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3739682	1.00[EUR][1000 genomes]
rs3814514	1.00[EUR][1000 genomes]
rs7022355	0.91[ASN][1000 genomes]
rs7031985	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7033723	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7038544	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7043800	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73482880	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7847340	1.00[AMR][1000 genomes]
rs7861182	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7864131	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][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	nsv1024207	chr9:33296368-33574892	Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
2	nsv972306	chr9:33486353-33510883	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv427840	chr9:33495185-33989975	Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:33475000-33510400	Weak transcription	Fetal Lung	lung
2	chr9:33475000-33510600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr9:33478800-33510600	Weak transcription	Fetal Muscle Leg	muscle
4	chr9:33495600-33510200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr9:33498200-33510400	Weak transcription	Fetal Stomach	stomach
6	chr9:33500000-33510600	Weak transcription	Fetal Muscle Trunk	muscle
7	chr9:33500800-33510800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr9:33502800-33510600	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr9:33502800-33510800	Weak transcription	Left Ventricle	heart
10	chr9:33504800-33510600	Weak transcription	Primary hematopoietic stem cells	blood
11	chr9:33504800-33510600	Weak transcription	Stomach Smooth Muscle	stomach
12	chr9:33505400-33510600	Weak transcription	Right Ventricle	heart
13	chr9:33506400-33510600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr9:33506800-33510800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr9:33506800-33510800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr9:33506800-33510800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr9:33506800-33510800	Weak transcription	Esophagus	oesophagus
18	chr9:33507200-33510400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr9:33507200-33510400	Weak transcription	HepG2	liver
20	chr9:33507200-33510800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr9:33507400-33510200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr9:33507400-33510200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr9:33507400-33510200	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr9:33507400-33510200	Weak transcription	HMEC	breast
25	chr9:33507400-33510200	Weak transcription	K562	blood
26	chr9:33507400-33510400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr9:33507400-33510400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr9:33507400-33510400	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr9:33507400-33510400	Weak transcription	A549	lung
30	chr9:33507400-33510400	Weak transcription	NH-A	brain
31	chr9:33507400-33510600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr9:33507400-33510600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr9:33507400-33510600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr9:33507400-33510600	Weak transcription	HSMMtube	muscle
35	chr9:33507400-33510600	Weak transcription	NHDF-Ad	bronchial
36	chr9:33507400-33510600	Weak transcription	NHLF	lung
37	chr9:33507400-33510800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr9:33507400-33510800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr9:33507400-33510800	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr9:33507400-33510800	Weak transcription	HSMM	muscle
41	chr9:33507600-33510400	Weak transcription	NHEK	skin
42	chr9:33508000-33510200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr9:33508200-33510400	Weak transcription	Osteobl	bone
44	chr9:33508800-33510200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr9:33508800-33510200	Enhancers	Dnd41	blood
46	chr9:33509200-33510000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr9:33509200-33510200	Weak transcription	Hela-S3	cervix
48	chr9:33509200-33510200	Enhancers	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links