Variant report

Variant	rs12892852
Chromosome Location	chr14:65179996-65179997
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:65168529..65178400-chr14:65179583..65195815,52	MCF-7	breast:

Variant related genes	Relation type
ENSG00000126822	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10138034	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11621159	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11621379	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11622754	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11625500	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11628301	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12883289	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12884903	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12895353	0.82[CEU][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1553163	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs170683	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs170685	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17767074	0.83[AMR][1000 genomes]
rs229622	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs229645	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs229648	1.00[ASN][1000 genomes]
rs229649	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs229653	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs229656	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34340219	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7140781	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71420472	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs732311	0.82[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9943995	1.00[CEU][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv1049097	chr14:65027753-65202018	Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	esv1818582	chr14:65172898-65256685	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1035833	chr14:65176371-65246181	Enhancers Strong transcription Genic enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	11 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	chr14:65175200-65181000	Weak transcription	Hela-S3	cervix
2	chr14:65175200-65181800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr14:65176000-65180000	Weak transcription	Fetal Kidney	kidney
4	chr14:65176000-65186400	Weak transcription	Osteobl	bone
5	chr14:65176200-65180400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
6	chr14:65176200-65181400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
7	chr14:65176200-65182000	Weak transcription	Colonic Mucosa	Colon
8	chr14:65176400-65181200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr14:65176400-65181400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr14:65176400-65181800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr14:65176400-65182000	Weak transcription	Stomach Mucosa	stomach
12	chr14:65176800-65181400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr14:65176800-65181600	Weak transcription	Esophagus	oesophagus
14	chr14:65176800-65182000	Weak transcription	Gastric	stomach
15	chr14:65177000-65180200	Weak transcription	HMEC	breast
16	chr14:65177000-65180800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr14:65177000-65181400	Weak transcription	Pancreas	Pancrea
18	chr14:65177000-65181800	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr14:65177000-65189200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
20	chr14:65177200-65181400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr14:65177200-65183400	Enhancers	Primary neutrophils fromperipheralblood	blood
22	chr14:65177400-65180800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr14:65177600-65180600	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr14:65177600-65181400	Weak transcription	Aorta	Aorta
25	chr14:65177800-65181200	Weak transcription	Placenta	Placenta
26	chr14:65178000-65180800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr14:65178000-65180800	Weak transcription	Brain Angular Gyrus	brain
28	chr14:65178000-65181400	Weak transcription	Left Ventricle	heart
29	chr14:65178000-65181400	Weak transcription	Lung	lung
30	chr14:65178000-65181400	Weak transcription	Right Atrium	heart
31	chr14:65178000-65181600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr14:65178000-65181800	Weak transcription	Placenta Amnion	Placenta Amnion
33	chr14:65178000-65182000	Weak transcription	Ovary	ovary
34	chr14:65178000-65182000	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr14:65178200-65180200	Weak transcription	Monocytes-CD14+_RO01746	blood
36	chr14:65178200-65180800	Weak transcription	Primary monocytes fromperipheralblood	blood
37	chr14:65178200-65181000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr14:65178200-65181000	Weak transcription	NHEK	skin
39	chr14:65178200-65181200	Weak transcription	Primary T helper cells PMA-I stimulated	--
40	chr14:65178200-65181400	Weak transcription	Fetal Intestine Small	intestine
41	chr14:65178200-65181800	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr14:65178200-65182000	Weak transcription	Fetal Stomach	stomach
43	chr14:65178200-65182000	Weak transcription	Rectal Smooth Muscle	rectum
44	chr14:65178200-65182000	Weak transcription	Stomach Smooth Muscle	stomach
45	chr14:65178600-65180000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr14:65178600-65180400	ZNF genes & repeats	A549	lung
47	chr14:65178800-65180400	ZNF genes & repeats	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr14:65178800-65180800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr14:65179000-65180800	Weak transcription	Brain Anterior Caudate	brain
50	chr14:65179000-65180800	Weak transcription	Brain Cingulate Gyrus	brain

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