Variant report

Variant	rs35693439
Chromosome Location	chr6:35108553-35108554
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:35107772..35108596-chr6:35208578..35209321,2	MCF-7	breast:

Extended variants
information (count: 71 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs1093986	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11552398	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13196771	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13203612	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13206654	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13207848	0.80[EUR][1000 genomes]
rs13208078	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13214114	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13216424	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs13219307	0.81[ASN][1000 genomes]
rs16871749	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16871809	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16871814	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16896559	0.86[ASN][1000 genomes]
rs1747516	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1747517	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17610836	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17611877	0.97[ASN][1000 genomes]
rs2177382	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2234044	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2395608	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2494098	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2762336	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2820225	0.84[ASN][1000 genomes]
rs34069418	0.86[ASN][1000 genomes]
rs34103100	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34208177	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34250961	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34715060	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34930033	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35095464	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35106671	0.80[EUR][1000 genomes]
rs3756856	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41270050	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4628094	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57111149	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs66579470	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67167177	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67638810	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67941146	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6899618	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6906666	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6913286	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6913975	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6926532	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6936337	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6942104	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs728238	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72896254	0.86[ASN][1000 genomes]
rs72897804	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72901705	0.98[ASN][1000 genomes]
rs7766770	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7767073	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs820061	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs820062	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs820063	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs820065	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs820066	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs820067	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs820069	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs820072	0.86[ASN][1000 genomes]
rs820083	0.83[ASN][1000 genomes]
rs820095	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs820099	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs820100	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs820101	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs820103	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs843937	0.86[ASN][1000 genomes]
rs9462053	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462054	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469950	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs35693439	TCP11	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35104000-35108600	Weak transcription	Ovary	ovary
2	chr6:35104400-35114000	Weak transcription	Brain Cingulate Gyrus	brain
3	chr6:35105000-35108800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr6:35106000-35110400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr6:35106000-35113600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr6:35106200-35113400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr6:35107200-35108800	Enhancers	Rectal Mucosa Donor 31	rectum
8	chr6:35107400-35109600	Enhancers	Stomach Mucosa	stomach
9	chr6:35107400-35110400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr6:35107600-35108600	Weak transcription	Colonic Mucosa	Colon
11	chr6:35107600-35108600	Enhancers	Fetal Heart	heart
12	chr6:35107800-35108600	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
13	chr6:35107800-35108600	Bivalent Enhancer	Primary T regulatory cells fromperipheralblood	blood
14	chr6:35107800-35108800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
15	chr6:35107800-35108800	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr6:35107800-35109000	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
17	chr6:35107800-35109600	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
18	chr6:35108000-35108600	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood
19	chr6:35108000-35108600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr6:35108000-35108600	Enhancers	Duodenum Smooth Muscle	Duodenum
21	chr6:35108000-35108600	Enhancers	Fetal Brain Male	brain
22	chr6:35108000-35108600	Enhancers	Fetal Lung	lung
23	chr6:35108000-35108600	Bivalent Enhancer	Thymus	Thymus
24	chr6:35108000-35108800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr6:35108000-35108800	Enhancers	Primary T helper naive cells from peripheral blood	blood
26	chr6:35108000-35108800	Bivalent Enhancer	Primary T killer memory cells from peripheral blood	blood
27	chr6:35108000-35108800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr6:35108000-35109000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
29	chr6:35108000-35109200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr6:35108000-35109400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr6:35108000-35109400	Bivalent Enhancer	Primary B cells from peripheral blood	blood
32	chr6:35108000-35109400	Enhancers	Spleen	Spleen
33	chr6:35108000-35109600	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
34	chr6:35108000-35109600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
35	chr6:35108000-35109600	Enhancers	Primary T helper cells fromperipheralblood	blood
36	chr6:35108000-35109800	Bivalent Enhancer	Fetal Thymus	thymus
37	chr6:35108200-35108600	Weak transcription	Adipose Nuclei	Adipose
38	chr6:35108200-35108800	Weak transcription	Primary T cells from cord blood	blood
39	chr6:35108200-35109000	Enhancers	Primary B cells from cord blood	blood
40	chr6:35108200-35109200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr6:35108200-35110200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr6:35108200-35110200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr6:35108200-35110200	Weak transcription	Liver	Liver
44	chr6:35108200-35110200	Weak transcription	HSMMtube	muscle
45	chr6:35108200-35110400	Weak transcription	NHDF-Ad	bronchial
46	chr6:35108200-35113600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr6:35108200-35113800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr6:35108200-35113800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr6:35108200-35114400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr6:35108200-35114600	Weak transcription	Rectal Smooth Muscle	rectum

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