Variant report

Variant	rs10520842
Chromosome Location	chr5:16626717-16626718
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ESR1	chr5:16626673-16627150	T-47D	breast:	n/a	chr5:16626943-16626958
2	ESR1	chr5:16626683-16627120	T-47D	breast:	n/a	chr5:16626943-16626958
3	ESR1	chr5:16626681-16627155	T-47D	breast:	n/a	chr5:16626943-16626958
4	MAX	chr5:16626629-16627388	NB4	blood:	n/a	chr5:16627109-16627119
5	ESR1	chr5:16626656-16627198	T-47D	breast:	n/a	chr5:16626943-16626958
6	ESR1	chr5:16626669-16627163	ECC-1	luminal epithelium:	n/a	chr5:16626943-16626958

No.	Distal block	Cell Line	Cell type
1	chr5:16588651..16589517-chr5:16626683..16627384,4	MCF-7	breast:
2	chr5:16588331..16589560-chr5:16626475..16627361,9	MCF-7	breast:
3	chr5:16588331..16589560-chr5:16626475..16627361,14	MCF-7	breast:
4	chr5:16625039..16627888-chr5:16628424..16629990,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000201370	TF binding region

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs62371291	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62371316	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62371317	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62371318	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv881187	chr5:16514269-16654960	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:16618600-16627000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr5:16623200-16630600	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr5:16624200-16627000	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr5:16624400-16627400	Enhancers	Fetal Heart	heart
5	chr5:16624600-16627800	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr5:16625200-16626800	Enhancers	Primary T helper cells PMA-I stimulated	--
7	chr5:16625200-16627200	Enhancers	Brain Hippocampus Middle	brain
8	chr5:16625200-16627600	Enhancers	Brain Substantia Nigra	brain
9	chr5:16625200-16627800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr5:16625200-16631000	Enhancers	Thymus	Thymus
11	chr5:16625400-16627200	Enhancers	Brain Cingulate Gyrus	brain
12	chr5:16625400-16628000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr5:16625400-16630400	Enhancers	Fetal Thymus	thymus
14	chr5:16625600-16627000	Enhancers	Brain Angular Gyrus	brain
15	chr5:16625600-16627000	Enhancers	Brain Inferior Temporal Lobe	brain
16	chr5:16625600-16628000	Active TSS	Right Atrium	heart
17	chr5:16625600-16629200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr5:16625600-16631200	Enhancers	Primary T cells fromperipheralblood	blood
19	chr5:16625600-16631200	Enhancers	Primary T helper cells fromperipheralblood	blood
20	chr5:16625600-16631600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
21	chr5:16625800-16626800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr5:16625800-16629200	Weak transcription	Primary B cells from peripheral blood	blood
23	chr5:16625800-16629400	Enhancers	Primary T helper naive cells from peripheral blood	blood
24	chr5:16626000-16627400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr5:16626200-16626800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
26	chr5:16626200-16627400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
27	chr5:16626200-16628800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
28	chr5:16626200-16629800	Enhancers	Primary T killer memory cells from peripheral blood	blood
29	chr5:16626400-16627200	Flanking Active TSS	Primary T cells from cord blood	blood
30	chr5:16626400-16628800	Enhancers	Primary hematopoietic stem cells	blood
31	chr5:16626400-16629400	Weak transcription	Left Ventricle	heart
32	chr5:16626600-16626800	Bivalent Enhancer	ES-WA7 Cell Line	embryonic stem cell
33	chr5:16626600-16627000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
34	chr5:16626600-16627000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
35	chr5:16626600-16627400	Weak transcription	Primary B cells from cord blood	blood
36	chr5:16626600-16627800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr5:16626600-16628400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
38	chr5:16626600-16628800	Enhancers	Breast Myoepithelial Primary Cells	Breast
39	chr5:16626600-16629000	Enhancers	Adipose Nuclei	Adipose
40	chr5:16626600-16630200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

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