Variant report

Variant	rs7179417
Chromosome Location	chr15:40039895-40039896
allele	C/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	STAT3	chr15:40039572-40039948	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr15:40038941-40040112	MCF10A-Er-Src	breast:	n/a	n/a
3	GATA3	chr15:40039427-40040050	SK-N-SH	brain:	n/a	n/a
4	JUND	chr15:40039446-40040023	SK-N-SH	brain:	n/a	n/a
5	FOS	chr15:40039529-40039911	MCF10A-Er-Src	breast:	n/a	chr15:40039705-40039716
6	FOSL2	chr15:40039463-40039942	SK-N-SH	brain:	n/a	n/a
7	FOS	chr15:40039528-40039934	MCF10A-Er-Src	breast:	n/a	chr15:40039705-40039716
8	FOS	chr15:40039534-40039939	MCF10A-Er-Src	breast:	n/a	chr15:40039705-40039716
9	FOS	chr15:40039540-40039905	MCF10A-Er-Src	breast:	n/a	chr15:40039705-40039716
10	FOSL2	chr15:40039496-40039981	A549	lung:	n/a	n/a
11	FOS	chr15:40039532-40039915	HUVEC	blood vessel:	n/a	chr15:40039705-40039716

Variant related genes	Relation type
FSIP1	TF binding region

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1021410	0.92[CEU][hapmap];0.80[EUR][1000 genomes]
rs1021411	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs1166716	1.00[CEU][hapmap]
rs1166718	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1166722	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1166723	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12592687	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1565559	0.89[CEU][hapmap];0.80[EUR][1000 genomes]
rs1565561	0.88[CEU][hapmap]
rs1688087	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1844863	0.87[CEU][hapmap]
rs1906163	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs1906164	0.88[CEU][hapmap]
rs2029584	0.85[CEU][hapmap]
rs2576929	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2576932	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2576933	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2631714	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2638009	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34943556	0.83[ASN][1000 genomes]
rs4115216	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs4924385	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4924389	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4924391	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs592172	0.87[ASN][1000 genomes]
rs594863	0.85[JPT][hapmap];0.82[YRI][hapmap];0.81[ASN][1000 genomes]
rs606927	0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs62004808	0.81[EUR][1000 genomes]
rs620407	0.81[CHB][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs6492914	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.94[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6492915	0.91[CHB][hapmap];0.81[JPT][hapmap];0.87[ASN][1000 genomes]
rs6492919	0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs66496275	0.83[ASN][1000 genomes]
rs670748	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7165067	0.81[YRI][hapmap]
rs7165244	0.81[JPT][hapmap]
rs7179742	0.85[CEU][hapmap];0.80[EUR][1000 genomes]
rs7179838	0.89[CEU][hapmap]
rs7180846	0.92[CEU][hapmap]
rs8031241	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8033485	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8033957	0.90[CHB][hapmap];0.81[JPT][hapmap];0.86[ASN][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	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv832978	chr15:39899759-40094881	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40029200-40040200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr15:40033600-40040200	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr15:40035000-40040400	Weak transcription	Adipose Nuclei	Adipose
4	chr15:40035600-40050000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr15:40037800-40041400	Enhancers	Hela-S3	cervix
6	chr15:40038000-40040400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr15:40038400-40040800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr15:40038400-40041200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr15:40038400-40041200	Enhancers	Osteobl	bone
10	chr15:40038600-40040200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr15:40038600-40041200	Enhancers	NHDF-Ad	bronchial
12	chr15:40039000-40040200	Enhancers	A549	lung
13	chr15:40039200-40041000	Enhancers	Muscle Satellite Cultured Cells	--
14	chr15:40039400-40040800	Enhancers	NHEK	skin
15	chr15:40039400-40049000	Weak transcription	HUVEC	blood vessel
16	chr15:40039600-40040000	Enhancers	HSMMtube	muscle
17	chr15:40039600-40040400	Enhancers	HSMM	muscle
18	chr15:40039600-40040800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:40039800-40040000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr15:40039800-40040000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr15:40039800-40040000	Weak transcription	HMEC	breast
22	chr15:40039800-40040200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr15:40039800-40041000	Enhancers	Rectal Smooth Muscle	rectum

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