Variant report

Variant	rs34490804
Chromosome Location	chr15:50474900-50474901
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:50473541..50475661-chr15:50496786..50499425,2	MCF-7	breast:
2	chr15:50473948..50476834-chr15:50511893..50514231,2	MCF-7	breast:
3	chr15:50471646..50476620-chr15:50646050..50650091,9	MCF-7	breast:
4	chr15:50473235..50476211-chr15:50645559..50648841,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000200605	Chromatin interaction
ENSG00000104064	Chromatin interaction
ENSG00000140284	Chromatin interaction
ENSG00000244879	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs11070756	0.85[ASN][1000 genomes]
rs11070757	0.85[ASN][1000 genomes]
rs11854761	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11854881	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11858160	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12440837	0.81[ASN][1000 genomes]
rs12906623	0.81[ASN][1000 genomes]
rs12912519	0.81[ASN][1000 genomes]
rs16963441	0.80[AMR][1000 genomes]
rs17415862	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17499726	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2414037	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3803371	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55740521	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55852503	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55853214	0.89[ASN][1000 genomes]
rs55970302	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56083537	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56306192	0.80[AMR][1000 genomes]
rs57335604	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58277329	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59690694	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60383354	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60387657	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs66472276	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7182866	0.80[AMR][1000 genomes]
rs72737014	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72737020	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72737025	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72737026	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72737028	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72737030	0.85[ASN][1000 genomes]
rs72737033	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72737034	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72737035	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72737040	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72737046	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72737047	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72737057	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73395114	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs8033014	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8036098	0.81[ASN][1000 genomes]
rs9672196	0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
2	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv1035983	chr15:50223334-50595170	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv542382	chr15:50223334-50595170	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv904209	chr15:50444824-50482133	Enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:50473600-50475600	Active TSS	Pancreatic Islets	Pancreatic Islet
2	chr15:50473800-50475000	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
3	chr15:50473800-50475000	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
4	chr15:50473800-50475200	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
5	chr15:50473800-50475600	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
6	chr15:50473800-50475800	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
7	chr15:50474000-50475000	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr15:50474000-50475000	Active TSS	Breast Myoepithelial Primary Cells	Breast
9	chr15:50474000-50475000	Active TSS	Primary T killer memory cells from peripheral blood	blood
10	chr15:50474000-50475000	Active TSS	Brain Angular Gyrus	brain
11	chr15:50474000-50475000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
12	chr15:50474000-50475000	Bivalent/Poised TSS	HSMM	muscle
13	chr15:50474000-50475200	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
14	chr15:50474000-50475200	Flanking Bivalent TSS/Enh	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr15:50474000-50475200	Flanking Bivalent TSS/Enh	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr15:50474000-50475200	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr15:50474000-50475400	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
18	chr15:50474000-50475400	Bivalent/Poised TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr15:50474000-50475400	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr15:50474000-50475400	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr15:50474000-50475400	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
22	chr15:50474000-50475400	Bivalent/Poised TSS	Fetal Stomach	stomach
23	chr15:50474000-50475600	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr15:50474000-50475800	Flanking Active TSS	Primary hematopoietic stem cells	blood
25	chr15:50474000-50476000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
26	chr15:50474000-50476000	Bivalent/Poised TSS	Fetal Intestine Large	intestine
27	chr15:50474000-50476000	Bivalent/Poised TSS	Fetal Kidney	kidney
28	chr15:50474000-50476000	Active TSS	Rectal Mucosa Donor 31	rectum
29	chr15:50474000-50476200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr15:50474200-50475000	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr15:50474200-50475000	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
32	chr15:50474200-50475000	Bivalent/Poised TSS	ES-UCSF4 Cell Line	embryonic stem cell
33	chr15:50474200-50475000	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
34	chr15:50474200-50475000	Active TSS	Primary T helper naive cells fromperipheralblood	blood
35	chr15:50474200-50475000	Bivalent/Poised TSS	Brain Germinal Matrix	brain
36	chr15:50474200-50475000	Flanking Active TSS	Ovary	ovary
37	chr15:50474200-50475000	Flanking Bivalent TSS/Enh	Psoas Muscle	Psoas
38	chr15:50474200-50475000	Active TSS	Rectal Smooth Muscle	rectum
39	chr15:50474200-50475000	Active TSS	Sigmoid Colon	Sigmoid Colon
40	chr15:50474200-50475000	Bivalent/Poised TSS	HSMMtube	muscle
41	chr15:50474200-50475000	Active TSS	K562	blood
42	chr15:50474200-50475000	Bivalent/Poised TSS	NHDF-Ad	bronchial
43	chr15:50474200-50475200	Flanking Bivalent TSS/Enh	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr15:50474200-50475200	Bivalent/Poised TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr15:50474200-50475200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
46	chr15:50474200-50475200	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
47	chr15:50474200-50475200	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr15:50474200-50475200	Flanking Bivalent TSS/Enh	Muscle Satellite Cultured Cells	--
49	chr15:50474200-50475200	Flanking Bivalent TSS/Enh	Cortex derived primary cultured neurospheres	brain
50	chr15:50474200-50475200	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin01	Skin

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