Variant report

Variant	rs17085980
Chromosome Location	chr9:85647654-85647655
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:85646151..85647909-chr9:85674836..85678047,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165105	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs17085959	0.92[YRI][hapmap]
rs17085961	0.92[YRI][hapmap]
rs17085962	0.86[YRI][hapmap]
rs17085963	0.92[YRI][hapmap]
rs17085969	0.92[YRI][hapmap]
rs17085973	0.92[YRI][hapmap]
rs17085982	0.92[YRI][hapmap]
rs56732286	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57166033	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57296213	1.00[AMR][1000 genomes]
rs58577670	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60115968	0.87[AFR][1000 genomes]
rs7030604	0.92[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7043044	0.92[YRI][hapmap]
rs7043189	0.92[YRI][hapmap]
rs7043478	0.92[YRI][hapmap]
rs7043943	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73467555	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73467563	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73467565	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73467574	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73467581	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73467583	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469470	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469501	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471411	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471425	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471438	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471447	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471451	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471455	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471457	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471458	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471460	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471461	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471464	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471466	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471468	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471469	1.00[AMR][1000 genomes]
rs73471471	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471473	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471474	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471479	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471485	1.00[AMR][1000 genomes]
rs73471486	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471487	0.84[AFR][1000 genomes]
rs7470760	0.98[AFR][1000 genomes];1.00[AMR][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	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

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85640400-85656400	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr9:85644200-85649600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr9:85644200-85654800	Weak transcription	Fetal Intestine Small	intestine
4	chr9:85644800-85648400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr9:85644800-85670600	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr9:85645000-85648400	Weak transcription	HMEC	breast
7	chr9:85645000-85649000	Weak transcription	A549	lung
8	chr9:85645200-85649000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:85645600-85662800	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr9:85646800-85648400	Weak transcription	Pancreas	Pancrea
11	chr9:85647400-85649000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr9:85647400-85649000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr9:85647400-85649000	Weak transcription	NHEK	skin
14	chr9:85647400-85654200	Weak transcription	Gastric	stomach
15	chr9:85647400-85656400	Weak transcription	Stomach Mucosa	stomach

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