Variant report

Variant	rs73471438
Chromosome Location	chr9:85678688-85678689
allele	C/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	POLR2A	chr9:85676857-85678869	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr9:85678035-85678757	H1-neurons	neurons:	n/a	n/a
3	POLR2A	chr9:85678062-85678695	H1-neurons	neurons:	n/a	n/a
4	POLR2A	chr9:85678687-85678878	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
RASEF	TF binding region

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs17085980	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56732286	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57166033	1.00[AMR][1000 genomes]
rs57296213	1.00[AMR][1000 genomes]
rs58577670	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60115968	0.81[AFR][1000 genomes]
rs7030604	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7043943	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73467555	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73467563	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73467565	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73467574	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73467581	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73467583	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469445	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469470	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469501	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471411	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471425	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471447	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471451	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471455	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471457	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471458	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471460	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471461	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471464	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471466	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471468	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471469	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471471	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471473	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471474	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471479	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471485	1.00[AMR][1000 genomes]
rs73471486	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471487	0.87[AFR][1000 genomes]
rs7470760	0.91[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	nsv893511	chr9:85495968-85833127	Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1043722	chr9:85663674-85747562	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85674400-85679800	Active TSS	Rectal Mucosa Donor 29	rectum
2	chr9:85676000-85679400	Active TSS	Rectal Mucosa Donor 31	rectum
3	chr9:85676200-85679000	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
4	chr9:85676200-85679000	Active TSS	Rectal Smooth Muscle	rectum
5	chr9:85676600-85678800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
6	chr9:85676600-85679000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
7	chr9:85676600-85679000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
8	chr9:85676800-85679000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
9	chr9:85676800-85679000	Active TSS	Fetal Intestine Small	intestine
10	chr9:85677200-85679000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
11	chr9:85677400-85679000	Active TSS	Cortex derived primary cultured neurospheres	brain
12	chr9:85677400-85679400	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
13	chr9:85677800-85679000	Active TSS	Sigmoid Colon	Sigmoid Colon
14	chr9:85677800-85679000	Active TSS	Stomach Mucosa	stomach
15	chr9:85678200-85678800	Enhancers	Liver	Liver
16	chr9:85678400-85678800	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
17	chr9:85678400-85678800	Active TSS	HMEC	breast
18	chr9:85678400-85679000	Bivalent/Poised TSS	Fetal Stomach	stomach
19	chr9:85678400-85679000	Flanking Bivalent TSS/Enh	A549	lung
20	chr9:85678400-85679400	Active TSS	Duodenum Mucosa	Duodenum
21	chr9:85678600-85678800	Flanking Active TSS	Hela-S3	cervix
22	chr9:85678600-85679000	Active TSS	Fetal Intestine Large	intestine
23	chr9:85678600-85679200	Active TSS	Pancreatic Islets	Pancreatic Islet
24	chr9:85678600-85679200	Bivalent Enhancer	Fetal Lung	lung
25	chr9:85678600-85679600	Weak transcription	Pancreas	Pancrea
26	chr9:85678600-85681400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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