Variant report

Variant	rs9530927
Chromosome Location	chr13:80079392-80079393
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	chr13:79980185..79981866-chr13:80077804..80080259,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000139746	Chromatin interaction
ENSG00000227354	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11549502	0.83[CEU][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11838769	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11839222	0.89[AMR][1000 genomes]
rs11840407	1.00[CHB][hapmap]
rs17071629	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs17431002	1.00[CHB][hapmap];0.84[EUR][1000 genomes]
rs4884132	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4885635	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4885639	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4885641	0.84[EUR][1000 genomes]
rs6563111	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs67435118	0.85[AMR][1000 genomes]
rs7321672	0.89[AMR][1000 genomes]
rs73234683	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73234690	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73235960	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7337908	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs7338662	1.00[CHB][hapmap]
rs7399942	0.81[EUR][1000 genomes]
rs7983288	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7983516	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7990729	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7991663	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7992646	1.00[ASW][hapmap];0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.81[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs8000301	0.87[ASW][hapmap];0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.85[TSI][hapmap];0.84[YRI][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9530926	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9530928	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9530932	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9530933	0.85[CEU][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9530935	0.81[EUR][1000 genomes]
rs9530936	0.84[EUR][1000 genomes]
rs9545119	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9545126	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9545127	0.85[CEU][hapmap];0.94[TSI][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9545129	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.94[TSI][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9545130	0.85[CEU][hapmap];0.94[TSI][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9545132	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9545140	0.81[EUR][1000 genomes]
rs9545141	0.81[EUR][1000 genomes]
rs9545143	0.84[EUR][1000 genomes]
rs9545144	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832657	chr13:79904978-80099108	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
2	nsv523979	chr13:79979679-80120263	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv916983	chr13:80065879-80249702	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:80064800-80084800	Weak transcription	Fetal Intestine Small	intestine
2	chr13:80066800-80084000	Weak transcription	Pancreas	Pancrea
3	chr13:80066800-80122800	Weak transcription	Esophagus	oesophagus
4	chr13:80067200-80095000	Weak transcription	HSMM	muscle
5	chr13:80067400-80079400	Weak transcription	Brain Hippocampus Middle	brain
6	chr13:80070600-80096600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr13:80072200-80079400	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr13:80074400-80080600	Enhancers	Primary T helper cells PMA-I stimulated	--
9	chr13:80076000-80099200	Weak transcription	Hela-S3	cervix
10	chr13:80076200-80079400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr13:80076200-80082600	Weak transcription	Osteobl	bone
12	chr13:80076200-80093200	Weak transcription	HMEC	breast
13	chr13:80077600-80088800	Weak transcription	Brain Angular Gyrus	brain
14	chr13:80077600-80095600	Weak transcription	Fetal Intestine Large	intestine
15	chr13:80077800-80079400	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr13:80077800-80080200	Weak transcription	NHEK	skin
17	chr13:80077800-80082600	Weak transcription	Small Intestine	intestine
18	chr13:80077800-80082800	Weak transcription	Right Atrium	heart
19	chr13:80077800-80089000	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr13:80078000-80082400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr13:80078000-80097200	Weak transcription	Psoas Muscle	Psoas
22	chr13:80078000-80097800	Weak transcription	Ovary	ovary
23	chr13:80078200-80082400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr13:80078200-80082600	Weak transcription	Stomach Mucosa	stomach
25	chr13:80078200-80088600	Weak transcription	Fetal Heart	heart
26	chr13:80078200-80102000	Weak transcription	Right Ventricle	heart
27	chr13:80078800-80085800	Enhancers	Dnd41	blood
28	chr13:80079000-80080000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr13:80079200-80079400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
30	chr13:80079200-80079600	Enhancers	Gastric	stomach
31	chr13:80079200-80079800	Enhancers	Left Ventricle	heart
32	chr13:80079200-80080800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links