Variant report

Variant	rs12880842
Chromosome Location	chr14:68764254-68764255
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:68762972..68765914-chr14:69258149..69260170,3	MCF-7	breast:
2	chr14:68550358..68553138-chr14:68762603..68764718,2	MCF-7	breast:
3	chr14:68762626..68765415-chr14:69260275..69262660,2	MCF-7	breast:
4	chr14:68763749..68766581-chr14:68985695..68988216,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000185650	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10141370	0.97[EUR][1000 genomes]
rs1028577	0.89[EUR][1000 genomes]
rs10483807	0.91[EUR][1000 genomes]
rs1108590	0.98[EUR][1000 genomes]
rs11158728	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11158729	0.95[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs11158730	0.91[EUR][1000 genomes]
rs11626138	0.95[EUR][1000 genomes]
rs11626195	0.95[EUR][1000 genomes]
rs11627646	0.92[EUR][1000 genomes]
rs11628825	0.86[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs11628890	0.95[EUR][1000 genomes]
rs11628954	0.83[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs12878627	0.94[EUR][1000 genomes]
rs12878858	0.94[EUR][1000 genomes]
rs12880109	0.91[EUR][1000 genomes]
rs12881502	0.95[EUR][1000 genomes]
rs12883719	0.91[EUR][1000 genomes]
rs12884901	0.92[EUR][1000 genomes]
rs12885750	0.98[EUR][1000 genomes]
rs12886238	0.97[EUR][1000 genomes]
rs12889949	0.94[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs12890110	0.86[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs12890124	0.97[EUR][1000 genomes]
rs12890167	0.98[EUR][1000 genomes]
rs12892777	0.97[EUR][1000 genomes]
rs12896939	0.91[EUR][1000 genomes]
rs1956524	0.94[EUR][1000 genomes]
rs1956525	0.93[EUR][1000 genomes]
rs1956526	0.89[EUR][1000 genomes]
rs1956528	0.95[EUR][1000 genomes]
rs1956529	0.95[EUR][1000 genomes]
rs1956532	0.91[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs2013413	0.91[EUR][1000 genomes]
rs2064911	0.92[EUR][1000 genomes]
rs2064912	0.91[EUR][1000 genomes]
rs2145422	0.94[EUR][1000 genomes]
rs2145423	0.94[EUR][1000 genomes]
rs2180769	0.92[EUR][1000 genomes]
rs2180770	0.86[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs2877455	0.98[EUR][1000 genomes]
rs3784104	0.97[EUR][1000 genomes]
rs3784108	0.95[EUR][1000 genomes]
rs3784109	0.95[EUR][1000 genomes]
rs3825730	0.94[EUR][1000 genomes]
rs61985135	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs61985136	0.91[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs7140939	0.81[ASN][1000 genomes]
rs7146850	0.95[EUR][1000 genomes]
rs7147852	0.94[EUR][1000 genomes]
rs7148073	0.97[EUR][1000 genomes]
rs7150988	0.95[EUR][1000 genomes]
rs7155473	0.93[EUR][1000 genomes]
rs7158493	0.92[EUR][1000 genomes]
rs8017304	0.95[EUR][1000 genomes]
rs911254	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869154	chr14:68366754-69041768	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv428628	chr14:68674504-68835127	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:68746600-68764600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr14:68752400-68765000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr14:68752400-68768800	Weak transcription	Aorta	Aorta
4	chr14:68753400-68768800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr14:68753600-68768600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr14:68753600-68768800	Weak transcription	Dnd41	blood
7	chr14:68756600-68765200	Enhancers	Fetal Intestine Small	intestine
8	chr14:68757800-68765200	Enhancers	Fetal Intestine Large	intestine
9	chr14:68758200-68765600	Enhancers	Primary T cells from cord blood	blood
10	chr14:68758400-68765600	Enhancers	Fetal Kidney	kidney
11	chr14:68758400-68765600	Enhancers	Fetal Muscle Leg	muscle
12	chr14:68758600-68765200	Enhancers	Fetal Lung	lung
13	chr14:68759000-68768400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr14:68760000-68768800	Weak transcription	Thymus	Thymus
15	chr14:68760400-68768800	Weak transcription	Primary hematopoietic stem cells	blood
16	chr14:68760400-68776800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr14:68760600-68764800	Weak transcription	HUVEC	blood vessel
18	chr14:68760600-68765000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr14:68760600-68768400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr14:68760600-68768600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr14:68760600-68773600	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr14:68761000-68765200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
23	chr14:68761000-68767600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr14:68761200-68765200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr14:68761400-68765200	Enhancers	Ovary	ovary
26	chr14:68761600-68765600	Enhancers	Fetal Stomach	stomach
27	chr14:68762000-68773400	Weak transcription	Small Intestine	intestine
28	chr14:68762200-68764600	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr14:68762400-68764600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr14:68762400-68764800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr14:68762400-68764800	Weak transcription	Stomach Mucosa	stomach
32	chr14:68762400-68767400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr14:68762600-68764400	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr14:68762600-68764600	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr14:68762600-68764600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
36	chr14:68762600-68764800	Weak transcription	Primary T cells fromperipheralblood	blood
37	chr14:68762800-68764400	Weak transcription	Primary T helper cells PMA-I stimulated	--
38	chr14:68762800-68764600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr14:68762800-68765000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr14:68762800-68765600	Enhancers	HepG2	liver
41	chr14:68762800-68767000	Weak transcription	Left Ventricle	heart
42	chr14:68762800-68768800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr14:68762800-68771400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr14:68763000-68764400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr14:68763000-68764400	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr14:68763000-68768800	Weak transcription	Duodenum Mucosa	Duodenum
47	chr14:68763400-68764400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr14:68763400-68764400	Weak transcription	Primary B cells from peripheral blood	blood
49	chr14:68763400-68764400	Weak transcription	Fetal Thymus	thymus
50	chr14:68763400-68766400	Weak transcription	Fetal Heart	heart

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