Variant report

Variant	rs10083428
Chromosome Location	chr14:71266348-71266349
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	chr14:71265603..71269219-chr14:71272232..71276913,5	MCF-7	breast:
2	chr14:71254174..71260054-chr14:71263244..71266960,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000006432	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10483834	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11847356	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11847373	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12590049	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1548584	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17108554	0.88[EUR][1000 genomes]
rs17176985	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17177014	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17177097	0.81[EUR][1000 genomes]
rs17766512	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17766551	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17766661	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1859460	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1859461	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2023954	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3742847	0.91[EUR][1000 genomes]
rs4902857	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4902858	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4902859	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57284652	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57843652	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59858521	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60533515	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61988426	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61988427	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61990472	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61990476	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61990481	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61990518	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61990519	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61990520	0.88[EUR][1000 genomes]
rs61990521	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61990523	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61990526	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61990527	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61990550	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61990551	0.81[EUR][1000 genomes]
rs6573982	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6573983	0.81[EUR][1000 genomes]
rs7141204	0.81[EUR][1000 genomes]
rs7150427	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7151024	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs757570	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8006715	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8018972	0.88[EUR][1000 genomes]
rs8019053	0.87[EUR][1000 genomes]
rs8020803	0.81[EUR][1000 genomes]
rs8022621	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1039460	chr14:71176898-71371125	Weak transcription Enhancers Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv1041980	chr14:71196358-71767339	Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv542125	chr14:71196358-71767339	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv1035416	chr14:71212882-71623271	Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
5	nsv542126	chr14:71212882-71623271	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
6	nsv1049741	chr14:71233043-71462509	Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
7	nsv1037839	chr14:71263886-71625114	Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
8	nsv542127	chr14:71263886-71625114	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:71220800-71266400	Weak transcription	Fetal Intestine Large	intestine
2	chr14:71222600-71274600	Weak transcription	Hela-S3	cervix
3	chr14:71223000-71266600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr14:71238600-71266600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr14:71239000-71269600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr14:71242400-71266600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr14:71246800-71266800	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr14:71247400-71266600	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr14:71247800-71274600	Weak transcription	Stomach Mucosa	stomach
10	chr14:71248200-71271200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr14:71249000-71266400	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr14:71249400-71266600	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr14:71249400-71266600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr14:71249400-71274400	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr14:71249400-71274400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr14:71249400-71274600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr14:71249600-71274600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr14:71249800-71274600	Weak transcription	Primary hematopoietic stem cells	blood
19	chr14:71250400-71266600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr14:71252600-71268400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr14:71256600-71269600	Weak transcription	Brain Hippocampus Middle	brain
22	chr14:71257200-71274600	Weak transcription	Brain Anterior Caudate	brain
23	chr14:71257200-71274600	Weak transcription	Spleen	Spleen
24	chr14:71257800-71274800	Weak transcription	Colonic Mucosa	Colon
25	chr14:71258200-71267200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr14:71258400-71266400	Weak transcription	Primary B cells from cord blood	blood
27	chr14:71258600-71266400	Weak transcription	Brain Germinal Matrix	brain
28	chr14:71258800-71266400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr14:71258800-71266400	Weak transcription	Duodenum Mucosa	Duodenum
30	chr14:71258800-71266400	Weak transcription	Placenta	Placenta
31	chr14:71258800-71266600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr14:71258800-71267200	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr14:71259000-71274600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr14:71259400-71266400	Weak transcription	Liver	Liver
35	chr14:71259600-71267200	Weak transcription	Lung	lung
36	chr14:71259800-71267000	Weak transcription	Primary T cells from cord blood	blood
37	chr14:71260000-71266400	Weak transcription	Dnd41	blood
38	chr14:71260000-71266400	Weak transcription	GM12878-XiMat	blood
39	chr14:71260000-71268600	Weak transcription	Esophagus	oesophagus
40	chr14:71260000-71274800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr14:71260200-71267000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr14:71260200-71267200	Weak transcription	Gastric	stomach
43	chr14:71260200-71268200	Weak transcription	Stomach Smooth Muscle	stomach
44	chr14:71260800-71266400	Weak transcription	Fetal Intestine Small	intestine
45	chr14:71260800-71267000	Weak transcription	Pancreas	Pancrea
46	chr14:71261000-71266400	Weak transcription	Fetal Brain Female	brain
47	chr14:71261000-71266600	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr14:71261200-71270400	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr14:71261200-71270600	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr14:71261200-71271400	Weak transcription	Brain Cingulate Gyrus	brain

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