Variant report

Variant	rs17106425
Chromosome Location	chr14:78298684-78298685
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	chr14:78265179..78267744-chr14:78297216..78300164,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000063761	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10137794	0.96[EUR][1000 genomes]
rs10151830	1.00[CHB][hapmap]
rs10483887	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11159286	1.00[CEU][hapmap]
rs11159296	0.97[ASN][1000 genomes]
rs11627983	1.00[AFR][1000 genomes]
rs11628161	1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs12433276	1.00[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs12433306	1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs17106419	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17106489	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17106503	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17106513	1.00[CHB][hapmap]
rs17106514	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17106518	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17106524	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17106532	1.00[CHB][hapmap]
rs17106537	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17106552	1.00[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs17106556	1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs17106561	1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17106579	1.00[CHB][hapmap];0.85[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17106585	1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17106593	1.00[AFR][1000 genomes]
rs176942	1.00[CEU][hapmap]
rs176945	1.00[CEU][hapmap]
rs176967	1.00[CEU][hapmap]
rs2287647	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2287649	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2364740	1.00[CHB][hapmap]
rs2886169	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3783956	1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3783958	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3783963	1.00[CHB][hapmap]
rs3783965	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3783975	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3825690	1.00[CHB][hapmap]
rs4622441	1.00[CEU][hapmap]
rs56056525	0.85[ASN][1000 genomes]
rs57241351	0.85[ASN][1000 genomes]
rs61166317	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61975814	1.00[AFR][1000 genomes]
rs61990723	0.97[ASN][1000 genomes]
rs6574403	0.88[EUR][1000 genomes]
rs7140153	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7144053	1.00[CEU][hapmap]
rs7151514	1.00[CEU][hapmap]
rs7156202	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs8008106	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs8021036	1.00[CEU][hapmap]
rs874024	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs874434	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.82[EUR][1000 genomes];0.92[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	nsv1043788	chr14:78178490-78381190	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv565221	chr14:78295451-78298732	Weak transcription Strong transcription Enhancers Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
3	nsv565232	chr14:78296011-78298732	Strong transcription Weak transcription Enhancers Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:78267200-78304200	Weak transcription	HSMMtube	muscle
2	chr14:78267200-78310800	Weak transcription	Esophagus	oesophagus
3	chr14:78274800-78316600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr14:78283200-78301800	Weak transcription	Small Intestine	intestine
5	chr14:78283600-78311000	Weak transcription	Hela-S3	cervix
6	chr14:78284000-78299400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr14:78284200-78309400	Weak transcription	Brain Germinal Matrix	brain
8	chr14:78284200-78312600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr14:78284800-78300800	Weak transcription	Fetal Brain Male	brain
10	chr14:78284800-78305200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr14:78285800-78305800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr14:78286200-78299000	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr14:78286200-78301800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr14:78286200-78303000	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr14:78286400-78299200	Weak transcription	Rectal Smooth Muscle	rectum
16	chr14:78286400-78300400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr14:78286400-78303000	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr14:78286400-78305200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr14:78287000-78301400	Weak transcription	Right Ventricle	heart
20	chr14:78287000-78309400	Weak transcription	Primary B cells from peripheral blood	blood
21	chr14:78287000-78309600	Weak transcription	Osteobl	bone
22	chr14:78288600-78299400	Weak transcription	GM12878-XiMat	blood
23	chr14:78289200-78301200	Weak transcription	Brain Cingulate Gyrus	brain
24	chr14:78289200-78303400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr14:78289400-78300600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr14:78289400-78301000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr14:78289400-78301800	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr14:78289400-78305000	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr14:78289400-78305200	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr14:78289400-78305200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr14:78289600-78299400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr14:78289600-78300200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr14:78289600-78301200	Weak transcription	Psoas Muscle	Psoas
34	chr14:78289600-78303800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr14:78289600-78304600	Weak transcription	Brain Anterior Caudate	brain
36	chr14:78289600-78305000	Weak transcription	Fetal Thymus	thymus
37	chr14:78289600-78307000	Weak transcription	Colonic Mucosa	Colon
38	chr14:78289600-78311600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr14:78289800-78306000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
40	chr14:78289800-78309600	Weak transcription	Fetal Brain Female	brain
41	chr14:78290200-78305600	Weak transcription	Colon Smooth Muscle	Colon
42	chr14:78292400-78299200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr14:78292800-78305600	Weak transcription	Thymus	Thymus
44	chr14:78293000-78298800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr14:78293000-78304200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr14:78293000-78304800	Weak transcription	Dnd41	blood
47	chr14:78293400-78331800	Weak transcription	Pancreas	Pancrea
48	chr14:78295200-78301400	Strong transcription	Duodenum Smooth Muscle	Duodenum
49	chr14:78295200-78302000	Strong transcription	Primary T cells from cord blood	blood
50	chr14:78295400-78299400	Strong transcription	Primary T cells fromperipheralblood	blood

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