Variant report

Variant	rs12896436
Chromosome Location	chr14:81382533-81382534
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	chr14:81381982..81384021-chr14:81385728..81388999,4	MCF-7	breast:

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10133034	0.81[JPT][hapmap]
rs10141970	0.82[JPT][hapmap]
rs10142753	0.81[JPT][hapmap]
rs1016699	0.88[JPT][hapmap]
rs1038523	0.82[JPT][hapmap]
rs11625199	0.81[JPT][hapmap]
rs11627934	0.88[JPT][hapmap]
rs1197467	0.81[JPT][hapmap]
rs1197474	0.81[JPT][hapmap]
rs12050151	0.92[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12050342	0.81[JPT][hapmap]
rs12050416	0.86[JPT][hapmap]
rs12433134	0.88[JPT][hapmap]
rs12434318	0.88[JPT][hapmap]
rs12437260	0.82[JPT][hapmap]
rs162171	0.81[JPT][hapmap]
rs162174	0.81[JPT][hapmap]
rs170595	0.82[JPT][hapmap]
rs170596	0.82[JPT][hapmap]
rs17111153	0.92[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.90[EUR][1000 genomes]
rs17111237	0.85[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs17111246	0.85[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs17111256	1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs17615020	0.81[JPT][hapmap]
rs1863766	0.81[JPT][hapmap]
rs1976104	0.91[CHB][hapmap]
rs2010847	0.82[JPT][hapmap]
rs2059719	0.93[CEU][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2162547	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs228119	0.88[JPT][hapmap]
rs228122	0.81[JPT][hapmap]
rs2284720	0.81[JPT][hapmap]
rs2288347	0.81[JPT][hapmap]
rs2556607	0.86[JPT][hapmap]
rs2556611	0.81[JPT][hapmap]
rs2619661	0.82[JPT][hapmap]
rs28850656	0.86[JPT][hapmap]
rs2888032	0.81[JPT][hapmap]
rs327423	0.81[JPT][hapmap]
rs327424	0.81[JPT][hapmap]
rs327428	0.82[JPT][hapmap]
rs327429	0.81[JPT][hapmap]
rs327434	0.81[JPT][hapmap]
rs327452	0.82[JPT][hapmap]
rs327454	0.81[JPT][hapmap]
rs328206	0.82[JPT][hapmap]
rs328212	0.82[JPT][hapmap]
rs328213	0.81[JPT][hapmap]
rs4899780	0.87[JPT][hapmap]
rs4903949	0.81[JPT][hapmap]
rs57104434	0.87[AMR][1000 genomes]
rs6574608	0.81[JPT][hapmap]
rs6574609	0.86[JPT][hapmap]
rs6574610	0.82[JPT][hapmap]
rs7140452	0.87[CHB][hapmap];0.88[JPT][hapmap]
rs7157845	0.82[JPT][hapmap]
rs7158936	0.81[JPT][hapmap]
rs722906	0.82[JPT][hapmap]
rs72693028	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72693029	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72693043	0.97[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs72693050	0.93[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs759919	0.88[JPT][hapmap]
rs768359	0.86[JPT][hapmap]
rs8008366	0.82[JPT][hapmap]
rs8016507	0.81[JPT][hapmap]
rs9323694	0.86[JPT][hapmap]

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	nsv869348	chr14:80921098-81535754	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv832840	chr14:81270033-81423583	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:81345200-81386200	Weak transcription	Aorta	Aorta
2	chr14:81351400-81398400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr14:81355200-81384600	Weak transcription	Hela-S3	cervix
4	chr14:81357800-81392600	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr14:81358000-81396600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr14:81359200-81389600	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr14:81359400-81406000	Weak transcription	A549	lung
8	chr14:81359800-81396200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr14:81359800-81407200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr14:81360000-81383400	Strong transcription	Dnd41	blood
11	chr14:81360200-81393800	Weak transcription	HMEC	breast
12	chr14:81362000-81384600	Weak transcription	HUVEC	blood vessel
13	chr14:81362200-81392600	Weak transcription	NH-A	brain
14	chr14:81362200-81392800	Weak transcription	Fetal Muscle Leg	muscle
15	chr14:81363800-81391200	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr14:81364400-81395800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr14:81364400-81395800	Weak transcription	GM12878-XiMat	blood
18	chr14:81365200-81393000	Weak transcription	Stomach Smooth Muscle	stomach
19	chr14:81369400-81389200	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr14:81369600-81397200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr14:81370400-81393600	Weak transcription	NHEK	skin
22	chr14:81371600-81392800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr14:81372000-81392000	Weak transcription	Fetal Stomach	stomach
24	chr14:81373600-81392600	Weak transcription	Esophagus	oesophagus
25	chr14:81373800-81392200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr14:81375400-81384000	Weak transcription	Colonic Mucosa	Colon
27	chr14:81375400-81407600	Weak transcription	Gastric	stomach
28	chr14:81375800-81392800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr14:81378800-81382800	Strong transcription	Monocytes-CD14+_RO01746	blood
30	chr14:81378800-81384400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr14:81378800-81389200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr14:81379200-81382600	Strong transcription	HSMM	muscle
33	chr14:81379200-81392400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr14:81379400-81382600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr14:81379400-81407400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr14:81379600-81382600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr14:81379600-81383000	Strong transcription	HUES48 Cell Line	embryonic stem cell
38	chr14:81379600-81383200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr14:81379800-81382600	Strong transcription	Adipose Nuclei	Adipose
40	chr14:81379800-81383000	Strong transcription	Fetal Thymus	thymus
41	chr14:81379800-81383000	Strong transcription	Thymus	Thymus
42	chr14:81379800-81383400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr14:81380000-81382800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr14:81380000-81383200	Strong transcription	Primary monocytes fromperipheralblood	blood
45	chr14:81380000-81392600	Weak transcription	Right Ventricle	heart
46	chr14:81380600-81382600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr14:81380600-81382800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
48	chr14:81380600-81383000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr14:81380800-81383600	Weak transcription	Fetal Intestine Small	intestine
50	chr14:81380800-81389800	Weak transcription	Ovary	ovary

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