Variant report

Variant	rs4251729
Chromosome Location	chr17:34145352-34145353
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	chr17:34134673..34137724-chr17:34141957..34146258,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000267578	Chromatin interaction
ENSG00000172660	Chromatin interaction

Extended variants
information (count: 108 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:108)

rs_ID	r²[population]
rs11080360	0.86[ASN][1000 genomes]
rs11080361	0.86[ASN][1000 genomes]
rs11080362	0.86[ASN][1000 genomes]
rs11650409	0.86[ASN][1000 genomes]
rs11652192	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11652536	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11653016	0.86[ASN][1000 genomes]
rs11653051	0.86[ASN][1000 genomes]
rs11653204	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11655533	0.86[ASN][1000 genomes]
rs11656556	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11657908	0.86[ASN][1000 genomes]
rs11658222	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11868785	0.90[EUR][1000 genomes]
rs11868801	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11869976	0.86[ASN][1000 genomes]
rs16971670	0.86[ASN][1000 genomes]
rs2014839	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2107540	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2306630	0.82[EUR][1000 genomes]
rs28550999	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28739295	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28912068	0.89[ASN][1000 genomes]
rs3760326	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3760447	0.89[ASN][1000 genomes]
rs3785764	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3809769	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3817656	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4251702	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4251719	0.90[EUR][1000 genomes]
rs4251727	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4251737	0.90[EUR][1000 genomes]
rs4251751	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4251752	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4251769	0.85[EUR][1000 genomes]
rs4251788	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4795089	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4795091	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4795092	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4795093	0.82[EUR][1000 genomes]
rs4795095	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4795099	0.85[ASN][1000 genomes]
rs4795100	0.86[ASN][1000 genomes]
rs4796107	0.83[ASN][1000 genomes]
rs4796108	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4796109	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4796112	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4796113	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4796114	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4796115	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4796118	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4796119	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4796120	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4796123	0.87[ASN][1000 genomes]
rs4796124	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4796125	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4796126	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4796127	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4796129	0.84[EUR][1000 genomes]
rs4796130	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4796131	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56294660	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56344830	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59247105	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59338510	0.87[ASN][1000 genomes]
rs9303691	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9303693	0.86[ASN][1000 genomes]
rs9789051	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9889274	0.86[ASN][1000 genomes]
rs9889977	0.86[ASN][1000 genomes]
rs9891064	0.86[ASN][1000 genomes]
rs9893004	0.86[ASN][1000 genomes]
rs9894083	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9894314	0.86[ASN][1000 genomes]
rs9894799	0.86[ASN][1000 genomes]
rs9896265	0.85[ASN][1000 genomes]
rs9896658	0.86[ASN][1000 genomes]
rs9897665	0.86[ASN][1000 genomes]
rs9898132	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9898152	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9899215	0.86[ASN][1000 genomes]
rs9899866	0.86[ASN][1000 genomes]
rs9899870	0.86[ASN][1000 genomes]
rs9900236	0.86[ASN][1000 genomes]
rs9900473	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9901195	0.86[ASN][1000 genomes]
rs9901418	0.86[ASN][1000 genomes]
rs9903590	0.86[ASN][1000 genomes]
rs9904675	0.82[ASN][1000 genomes]
rs9907121	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9907145	0.86[ASN][1000 genomes]
rs9907295	0.80[ASN][1000 genomes]
rs9907588	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9908011	0.86[ASN][1000 genomes]
rs9908525	0.86[ASN][1000 genomes]
rs9908907	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9909050	0.87[ASN][1000 genomes]
rs9911016	0.86[ASN][1000 genomes]
rs9911598	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9912049	0.86[ASN][1000 genomes]
rs9912284	0.86[ASN][1000 genomes]
rs9912552	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9912571	0.86[ASN][1000 genomes]
rs9912793	0.86[ASN][1000 genomes]
rs9912894	0.86[ASN][1000 genomes]
rs9913488	0.86[ASN][1000 genomes]
rs9914401	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9914468	0.86[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4251729	TAF15	Cis_1M	lymphoblastoid	RTeQTL
rs4251729	RDM1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:34137600-34149200	Weak transcription	Gastric	stomach
2	chr17:34137800-34149200	Weak transcription	Esophagus	oesophagus
3	chr17:34137800-34149800	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr17:34137800-34152000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr17:34137800-34154000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr17:34138000-34146200	Enhancers	Primary T helper naive cells from peripheral blood	blood
7	chr17:34138000-34146800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr17:34138000-34149600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr17:34138000-34153400	Weak transcription	Right Ventricle	heart
10	chr17:34138000-34164200	Weak transcription	Colonic Mucosa	Colon
11	chr17:34138200-34145800	Weak transcription	NHDF-Ad	bronchial
12	chr17:34138200-34149400	Weak transcription	HSMMtube	muscle
13	chr17:34138200-34149600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr17:34138200-34151600	Weak transcription	Fetal Heart	heart
15	chr17:34138400-34146600	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr17:34138600-34180800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr17:34138800-34184000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr17:34139000-34146200	Weak transcription	NH-A	brain
19	chr17:34139200-34184200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr17:34139400-34146800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr17:34139400-34149400	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr17:34139400-34163800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr17:34139400-34163800	Weak transcription	Spleen	Spleen
24	chr17:34139400-34177600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
25	chr17:34140600-34148400	Weak transcription	Rectal Smooth Muscle	rectum
26	chr17:34140800-34149600	Weak transcription	Fetal Brain Male	brain
27	chr17:34141600-34177400	Strong transcription	HUES64 Cell Line	embryonic stem cell
28	chr17:34141800-34159800	Weak transcription	Aorta	Aorta
29	chr17:34142000-34148000	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr17:34142000-34175800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
31	chr17:34142000-34177600	Strong transcription	HUES48 Cell Line	embryonic stem cell
32	chr17:34142200-34152600	Strong transcription	Primary B cells from cord blood	blood
33	chr17:34142400-34148600	Strong transcription	GM12878-XiMat	blood
34	chr17:34142400-34177600	Strong transcription	Fetal Thymus	thymus
35	chr17:34142400-34178200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr17:34142600-34173200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr17:34142600-34175600	Strong transcription	H1 Cell Line	embryonic stem cell
38	chr17:34142600-34177400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
39	chr17:34142600-34180400	Strong transcription	HUES6 Cell Line	embryonic stem cell
40	chr17:34142800-34145400	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
41	chr17:34142800-34147800	Strong transcription	Fetal Muscle Trunk	muscle
42	chr17:34142800-34149600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr17:34142800-34153400	Strong transcription	Placenta	Placenta
44	chr17:34142800-34173200	Strong transcription	Osteobl	bone
45	chr17:34142800-34178600	Strong transcription	Monocytes-CD14+_RO01746	blood
46	chr17:34142800-34180800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr17:34142800-34181000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr17:34143000-34145400	Strong transcription	Brain Germinal Matrix	brain
49	chr17:34143000-34145600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr17:34143000-34145800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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