Variant report

Variant	rs8080778
Chromosome Location	chr17:38682200-38682201
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	chr17:38474075..38478371-chr17:38679567..38683859,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-IGFBP4-1	chr17:38681611-38682522	NONHSAT053554

Variant related genes	Relation type
ENSG00000131759	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs59946710	1.00[AFR][1000 genomes]
rs73293404	1.00[AFR][1000 genomes]
rs73293412	0.89[AFR][1000 genomes]
rs73293417	0.89[AFR][1000 genomes]
rs73293418	0.94[AFR][1000 genomes]
rs73293423	0.94[AFR][1000 genomes]
rs73310938	1.00[AFR][1000 genomes]
rs73310948	0.94[AFR][1000 genomes]
rs73310954	1.00[AFR][1000 genomes]
rs73310959	1.00[AFR][1000 genomes]
rs73310968	1.00[AFR][1000 genomes]
rs73310969	1.00[AFR][1000 genomes]
rs8080769	1.00[AFR][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	nsv1058185	chr17:38629339-38689908	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:38675600-38686600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr17:38677600-38682200	Weak transcription	Spleen	Spleen
3	chr17:38677600-38687800	Weak transcription	Right Ventricle	heart
4	chr17:38678000-38683000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr17:38678000-38686800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr17:38678200-38684200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr17:38678200-38685200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr17:38678600-38684200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr17:38678800-38686800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr17:38679000-38682800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr17:38679200-38684200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr17:38679200-38686600	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr17:38679200-38686800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr17:38679600-38683400	ZNF genes & repeats	A549	lung
15	chr17:38679800-38683000	Weak transcription	Esophagus	oesophagus
16	chr17:38680000-38685600	Weak transcription	Hela-S3	cervix
17	chr17:38680800-38686400	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr17:38681000-38682400	Weak transcription	Placenta	Placenta
19	chr17:38681000-38686800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr17:38681200-38682400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr17:38681200-38682400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr17:38681200-38682800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr17:38681200-38686600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr17:38681200-38688600	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr17:38681600-38682600	ZNF genes & repeats	HepG2	liver
26	chr17:38682000-38682600	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr17:38682000-38684400	Weak transcription	Primary T cells fromperipheralblood	blood
28	chr17:38682000-38684600	Weak transcription	Primary T cells from cord blood	blood
29	chr17:38682000-38686800	Weak transcription	Primary B cells from cord blood	blood
30	chr17:38682200-38682600	ZNF genes & repeats	Spleen	Spleen

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links