Variant report

Variant	rs10141433
Chromosome Location	chr14:103962559-103962560
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	chr14:103961087..103962811-chr14:103993813..103996154,2	MCF-7	breast:
2	chr14:103962191..103965143-chr14:103967090..103971008,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260285	Chromatin interaction
ENSG00000166166	Chromatin interaction

Extended variants
information (count: 102 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10133035	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10134580	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10135868	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1013650	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10139279	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10141120	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10141388	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10143247	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10145793	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10150072	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1022736	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1028613	0.88[EUR][1000 genomes]
rs1136165	0.82[EUR][1000 genomes]
rs11621037	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11621510	0.86[EUR][1000 genomes]
rs11622356	0.81[ASN][1000 genomes]
rs11623470	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11623869	0.88[EUR][1000 genomes]
rs11624367	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11626483	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11626787	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11627529	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11628213	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11628969	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12879085	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12888077	0.84[EUR][1000 genomes]
rs12889639	0.86[EUR][1000 genomes]
rs12890750	0.84[EUR][1000 genomes]
rs12898029	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1467561	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17617941	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17679475	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1803283	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1951392	0.84[EUR][1000 genomes]
rs1961600	0.84[EUR][1000 genomes]
rs1989565	0.86[EUR][1000 genomes]
rs2010281	0.85[EUR][1000 genomes]
rs2273699	0.82[AMR][1000 genomes]
rs2273700	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2273703	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2296484	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2296486	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2403180	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28361338	0.85[ASN][1000 genomes]
rs28369539	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28444993	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28496120	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28583452	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28626081	0.88[EUR][1000 genomes]
rs34216351	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3742458	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3759584	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3783394	0.85[EUR][1000 genomes]
rs3783395	0.88[EUR][1000 genomes]
rs3783402	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3825566	0.83[EUR][1000 genomes]
rs45441198	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4900572	0.86[EUR][1000 genomes]
rs4906321	0.80[EUR][1000 genomes]
rs55723020	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55859054	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56365443	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62006268	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62006272	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62007681	0.88[EUR][1000 genomes]
rs62007683	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62007684	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62007686	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62007687	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62007718	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62007719	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6575983	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6575984	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7140564	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7145113	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7146506	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7150317	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7152202	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7154246	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7155014	0.86[EUR][1000 genomes]
rs7156150	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7158144	0.88[EUR][1000 genomes]
rs7158822	0.88[EUR][1000 genomes]
rs7160208	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7160366	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72708854	0.85[EUR][1000 genomes]
rs72708874	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72708893	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72710714	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8013101	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8015918	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8019578	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9671911	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534254	chr14:103470073-104023906	Bivalent Enhancer Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	125 gene(s)	inside rSNPs	diseases
2	esv3332028	chr14:103581471-104328811	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
3	nsv832883	chr14:103927687-104120953	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
4	esv1835815	chr14:103942991-103989757	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	29 gene(s)	inside rSNPs	diseases
5	nsv1044967	chr14:103954727-104007051	Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
6	esv1807091	chr14:103956182-104020454	Enhancers Bivalent Enhancer Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
7	esv1835824	chr14:103956182-104020454	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
8	nsv902297	chr14:103956182-104061646	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
9	nsv902298	chr14:103959289-104061646	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10141433	BAG5	cis	multi-tissue	Pritchard
rs10141433	BAG5	Cis_1M	lymphoblastoid	RTeQTL
rs10141433	MARK3	cis	Thyroid	GTEx

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:103923200-103976800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr14:103923600-103967000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr14:103926800-103963400	Strong transcription	Fetal Intestine Large	intestine
4	chr14:103927800-103979800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr14:103939200-103966200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr14:103942800-103966400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr14:103943200-103969200	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr14:103945400-103962800	Strong transcription	Thymus	Thymus
9	chr14:103946400-103964400	Strong transcription	Fetal Thymus	thymus
10	chr14:103946800-103963800	Strong transcription	Primary T cells fromperipheralblood	blood
11	chr14:103947200-103963800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr14:103947600-103966600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr14:103947600-103967400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr14:103947600-103972800	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr14:103947600-103980000	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr14:103947800-103966000	Strong transcription	Primary T helper cells PMA-I stimulated	--
17	chr14:103950400-103978800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr14:103950600-103966600	Strong transcription	Fetal Stomach	stomach
19	chr14:103950600-103979000	Strong transcription	Fetal Intestine Small	intestine
20	chr14:103951200-103966000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr14:103951600-103972600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr14:103951600-103972800	Strong transcription	Dnd41	blood
23	chr14:103951600-103976600	Strong transcription	HUES64 Cell Line	embryonic stem cell
24	chr14:103951800-103962800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
25	chr14:103951800-103963000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
26	chr14:103952200-103966600	Weak transcription	Stomach Mucosa	stomach
27	chr14:103952400-103962600	Strong transcription	Cortex derived primary cultured neurospheres	brain
28	chr14:103952400-103968600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr14:103953000-103972800	Strong transcription	Primary T helper cells fromperipheralblood	blood
30	chr14:103953400-103962800	Strong transcription	Primary B cells from peripheral blood	blood
31	chr14:103953600-103962600	Strong transcription	HUES6 Cell Line	embryonic stem cell
32	chr14:103953600-103963200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr14:103953600-103966600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr14:103953800-103962600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr14:103953800-103962800	Strong transcription	Primary T cells from cord blood	blood
36	chr14:103953800-103965400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
37	chr14:103953800-103977200	Strong transcription	Rectal Mucosa Donor 29	rectum
38	chr14:103953800-103978800	Strong transcription	Duodenum Mucosa	Duodenum
39	chr14:103954000-103962600	Strong transcription	Liver	Liver
40	chr14:103954000-103967000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr14:103954400-103962600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
42	chr14:103954400-103962600	Strong transcription	Rectal Mucosa Donor 31	rectum
43	chr14:103954400-103963400	Strong transcription	Fetal Muscle Trunk	muscle
44	chr14:103955000-103967400	Weak transcription	Aorta	Aorta
45	chr14:103955200-103967800	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr14:103955400-103966200	Weak transcription	Fetal Heart	heart
47	chr14:103955800-103966200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr14:103956000-103966000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr14:103956000-103966600	Strong transcription	Fetal Muscle Leg	muscle
50	chr14:103956000-103969000	Weak transcription	Small Intestine	intestine

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