Variant report

Variant	rs17336944
Chromosome Location	chr15:75308374-75308375
allele	A/G
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	RPC155	chr15:75307882-75308522	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:75307941..75311039-chr15:75492807..75495397,4	MCF-7	breast:
2	chr15:75249504..75251132-chr15:75306617..75309149,2	MCF-7	breast:
3	chr15:75286200..75292858-chr15:75303462..75309796,11	MCF-7	breast:

Variant related genes	Relation type
SCAMP5	TF binding region
ENSG00000198794	Chromatin interaction
ENSG00000167173	Chromatin interaction
ENSG00000178718	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs12899456	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs12902887	0.87[AMR][1000 genomes]
rs12905058	0.92[AMR][1000 genomes]
rs12905176	0.89[AMR][1000 genomes]
rs12905302	0.80[AMR][1000 genomes]
rs12906126	1.00[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12906783	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12908596	0.84[AMR][1000 genomes]
rs12908919	0.89[CEU][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12910578	0.82[AMR][1000 genomes]
rs12911696	0.87[AMR][1000 genomes]
rs16973563	0.89[AMR][1000 genomes]
rs1822324	0.89[AMR][1000 genomes]
rs2304900	0.88[CEU][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34025186	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34073905	0.87[AFR][1000 genomes]
rs34142677	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34183160	0.89[AMR][1000 genomes]
rs34227381	0.89[AMR][1000 genomes]
rs34268734	0.89[AMR][1000 genomes]
rs34293738	0.83[AMR][1000 genomes]
rs34359839	0.83[AMR][1000 genomes]
rs34767908	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34820454	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34911644	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35056361	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35205508	0.89[AMR][1000 genomes]
rs35373072	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35375675	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35396991	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs35406858	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35933822	0.83[AMR][1000 genomes]
rs71401669	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs71401671	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71401672	0.89[AMR][1000 genomes]
rs71401673	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs71401675	0.82[AMR][1000 genomes]
rs71401676	0.80[AMR][1000 genomes]
rs71401677	0.82[AMR][1000 genomes]
rs71434254	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8038911	0.89[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv569993	chr15:75242155-75483752	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases
2	nsv542435	chr15:75271788-75321117	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv527237	chr15:75305040-75321262	Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75289000-75315800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:75289400-75315400	Weak transcription	Fetal Kidney	kidney
3	chr15:75290000-75309400	Weak transcription	Gastric	stomach
4	chr15:75290000-75316000	Weak transcription	Small Intestine	intestine
5	chr15:75293200-75315800	Weak transcription	Duodenum Mucosa	Duodenum
6	chr15:75294600-75312200	Weak transcription	Adipose Nuclei	Adipose
7	chr15:75294600-75315600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr15:75300400-75312200	Weak transcription	Spleen	Spleen
9	chr15:75301000-75315400	Weak transcription	Thymus	Thymus
10	chr15:75302000-75314000	Strong transcription	Fetal Intestine Small	intestine
11	chr15:75302200-75313200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr15:75302200-75313400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr15:75303600-75309800	Strong transcription	Brain Germinal Matrix	brain
14	chr15:75303600-75313800	Strong transcription	Cortex derived primary cultured neurospheres	brain
15	chr15:75303800-75309400	Strong transcription	Brain Cingulate Gyrus	brain
16	chr15:75303800-75313800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr15:75303800-75314000	Strong transcription	Fetal Brain Female	brain
18	chr15:75304000-75308800	Strong transcription	iPS-15b Cell Line	embryonic stem cell
19	chr15:75304000-75309400	Strong transcription	Brain Hippocampus Middle	brain
20	chr15:75304000-75309400	Strong transcription	Brain Inferior Temporal Lobe	brain
21	chr15:75304000-75315800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr15:75304000-75316000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
23	chr15:75304200-75310000	Weak transcription	Fetal Muscle Trunk	muscle
24	chr15:75304400-75313600	Strong transcription	Fetal Stomach	stomach
25	chr15:75304600-75313200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr15:75304800-75310200	Strong transcription	Brain Angular Gyrus	brain
27	chr15:75304800-75312600	Strong transcription	Brain Anterior Caudate	brain
28	chr15:75304800-75314000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr15:75305000-75315800	Weak transcription	Right Ventricle	heart
30	chr15:75305400-75309200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr15:75305600-75310800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr15:75305600-75311400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
33	chr15:75306000-75309200	Weak transcription	Brain Substantia Nigra	brain
34	chr15:75306000-75309600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr15:75306000-75312400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr15:75306200-75316000	Weak transcription	Fetal Brain Male	brain
37	chr15:75306600-75309000	Enhancers	Placenta	Placenta
38	chr15:75306600-75309400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr15:75306800-75308600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr15:75306800-75308800	Weak transcription	H1 Cell Line	embryonic stem cell
41	chr15:75306800-75308800	Weak transcription	Pancreas	Pancrea
42	chr15:75306800-75309200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr15:75306800-75309200	Weak transcription	Fetal Intestine Large	intestine
44	chr15:75307000-75308400	Weak transcription	HepG2	liver
45	chr15:75307200-75309400	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chr15:75307400-75308600	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr15:75307400-75309200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
48	chr15:75307600-75308600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr15:75307600-75309000	Weak transcription	HUES48 Cell Line	embryonic stem cell
50	chr15:75307600-75310800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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