Variant report

Variant	rs9603437
Chromosome Location	chr13:39394357-39394358
allele	C/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	GATA3	chr13:39394253-39394669	T-47D	breast:	n/a	n/a
2	FOXA1	chr13:39394316-39394533	T-47D	breast:	n/a	n/a
3	GATA3	chr13:39394297-39394594	T-47D	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:39392672..39394986-chr13:39401564..39403113,2	MCF-7	breast:

Variant related genes	Relation type
FREM2	TF binding region
ENSG00000225350	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs61745902	1.00[AMR][1000 genomes]
rs9532280	1.00[AMR][1000 genomes]
rs9603436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832585	chr13:39233307-39424375	Weak transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv2754118	chr13:39347702-40222644	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:39389000-39397400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr13:39389200-39404800	Weak transcription	Gastric	stomach
3	chr13:39389400-39395800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr13:39389400-39423000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr13:39390000-39395800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr13:39392600-39395800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr13:39392600-39397200	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr13:39392800-39394600	Enhancers	Brain Hippocampus Middle	brain
9	chr13:39393000-39394400	Enhancers	Fetal Heart	heart
10	chr13:39393000-39395000	Enhancers	Brain Substantia Nigra	brain
11	chr13:39393000-39395400	Enhancers	Colon Smooth Muscle	Colon
12	chr13:39393200-39394400	Enhancers	Brain Inferior Temporal Lobe	brain
13	chr13:39393200-39394600	Enhancers	Fetal Stomach	stomach
14	chr13:39393200-39397600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr13:39393400-39396400	Enhancers	Rectal Smooth Muscle	rectum
16	chr13:39393600-39395600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr13:39393600-39395600	Weak transcription	NHEK	skin
18	chr13:39393600-39395800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr13:39393600-39396000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr13:39393600-39398800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr13:39393600-39400400	Weak transcription	Pancreas	Pancrea
22	chr13:39393800-39394800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr13:39393800-39394800	Weak transcription	HMEC	breast
24	chr13:39393800-39395800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr13:39393800-39395800	Weak transcription	Brain Angular Gyrus	brain
26	chr13:39394000-39395600	Weak transcription	Brain Cingulate Gyrus	brain
27	chr13:39394200-39394600	Enhancers	Fetal Kidney	kidney
28	chr13:39394200-39395800	Weak transcription	Brain Anterior Caudate	brain

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