Variant report

Variant	rs13298225
Chromosome Location	chr9:7402125-7402126
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	chr9:7401862..7402674-chr9:7479089..7479897,2	MCF-7	breast:
2	chr9:7401751..7402674-chr9:7535710..7536817,3	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11793437	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12338203	0.89[ASN][1000 genomes]
rs12683302	0.82[ASN][1000 genomes]
rs13291981	0.88[ASN][1000 genomes]
rs13298146	0.83[ASN][1000 genomes]
rs7035570	0.90[ASN][1000 genomes]
rs7851639	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv613259	chr9:7032776-7541338	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv1015874	chr9:7048807-7434890	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv539971	chr9:7048807-7434890	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	esv2758178	chr9:7175387-7482982	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	esv2759662	chr9:7175387-7482982	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1032465	chr9:7182123-7409755	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv539972	chr9:7182123-7409755	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	esv34566	chr9:7291742-7781370	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv818681	chr9:7292836-7781365	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv1019226	chr9:7299548-7415463	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv539975	chr9:7299548-7415463	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv428534	chr9:7312939-7403231	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv613262	chr9:7336443-7417689	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv1034097	chr9:7345375-7405366	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
15	nsv1033077	chr9:7358832-7990735	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
16	nsv539977	chr9:7358832-7990735	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 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	chr9:7394200-7402200	Weak transcription	Brain Anterior Caudate	brain
2	chr9:7394400-7402800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr9:7399000-7402200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr9:7400000-7404000	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr9:7400400-7402400	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr9:7400400-7403200	Enhancers	Fetal Brain Male	brain
7	chr9:7400400-7403400	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr9:7400600-7402200	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr9:7400600-7402400	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr9:7400600-7403200	Enhancers	H1 Cell Line	embryonic stem cell
11	chr9:7401000-7402600	Enhancers	iPS-15b Cell Line	embryonic stem cell
12	chr9:7401200-7402200	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr9:7401400-7402600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr9:7401400-7403600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr9:7401600-7402200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr9:7401600-7402200	Enhancers	Brain Inferior Temporal Lobe	brain
17	chr9:7401600-7403200	Enhancers	Fetal Heart	heart
18	chr9:7401600-7405600	Enhancers	Fetal Muscle Leg	muscle
19	chr9:7402000-7402200	Enhancers	HSMMtube	muscle
20	chr9:7402000-7402400	Enhancers	Fetal Stomach	stomach
21	chr9:7402000-7402600	Enhancers	Brain Substantia Nigra	brain
22	chr9:7402000-7403000	Enhancers	Skeletal Muscle Female	skeletal muscle
23	chr9:7402000-7403400	Enhancers	Adipose Nuclei	Adipose
24	chr9:7402000-7403400	Enhancers	Brain Hippocampus Middle	brain

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