Variant report

Variant	rs9596498
Chromosome Location	chr13:51882446-51882447
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	chr13:51881497..51883529-chr13:52026918..52029105,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000236778	Chromatin interaction
ENSG00000102786	Chromatin interaction
ENSG00000224892	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs2153512	0.83[ASN][1000 genomes]
rs7322779	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7330764	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7990847	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7993686	0.82[EUR][1000 genomes]
rs9316533	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9596495	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9596497	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[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	nsv832611	chr13:51766472-51938314	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51853000-51889600	Weak transcription	Brain Angular Gyrus	brain
2	chr13:51867600-51910800	Weak transcription	Pancreas	Pancrea
3	chr13:51877000-51887800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr13:51877000-51889200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr13:51877600-51882800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr13:51877600-51886600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr13:51877800-51885200	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr13:51877800-51890000	Weak transcription	Lung	lung
9	chr13:51879800-51882800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr13:51879800-51889200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr13:51880000-51882800	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr13:51880000-51883000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr13:51880000-51885400	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr13:51880400-51882800	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr13:51880400-51882800	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr13:51880400-51882800	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr13:51880400-51882800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr13:51880400-51885000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr13:51880600-51885200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr13:51881600-51889400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr13:51881800-51889000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr13:51882200-51883400	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr13:51882200-51886200	Weak transcription	Brain Cingulate Gyrus	brain
24	chr13:51882400-51883400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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