Variant report

Variant	rs1273869
Chromosome Location	chr14:66506529-66506530
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:66503922..66506813-chr14:66507325..66508941,2	MCF-7	breast:
2	chr14:66497882..66501051-chr14:66504960..66506958,3	MCF-7	breast:
3	chr14:66504509..66507103-chr14:66519083..66521992,2	MCF-7	breast:
4	chr14:66499645..66502736-chr14:66504498..66507411,3	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10134858	0.82[ASN][1000 genomes]
rs10142278	0.88[ASN][1000 genomes]
rs10147364	0.82[ASN][1000 genomes]
rs10148230	0.88[ASN][1000 genomes]
rs10498523	0.88[ASN][1000 genomes]
rs12586140	0.88[ASN][1000 genomes]
rs12588471	0.88[ASN][1000 genomes]
rs12588472	0.88[ASN][1000 genomes]
rs12588493	0.88[ASN][1000 genomes]
rs12588504	0.88[ASN][1000 genomes]
rs12588689	0.96[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs12589766	0.88[ASN][1000 genomes]
rs12589905	0.88[ASN][1000 genomes]
rs12589911	0.88[ASN][1000 genomes]
rs12590440	0.88[ASN][1000 genomes]
rs1273870	0.96[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs13379051	0.82[ASN][1000 genomes]
rs4258536	0.88[ASN][1000 genomes]
rs4362327	0.88[ASN][1000 genomes]
rs4489934	0.88[ASN][1000 genomes]
rs4540993	0.88[ASN][1000 genomes]
rs4640111	0.88[ASN][1000 genomes]
rs4899191	0.88[ASN][1000 genomes]
rs4899192	0.88[ASN][1000 genomes]
rs4899193	0.88[ASN][1000 genomes]
rs4899194	0.88[ASN][1000 genomes]
rs4902443	0.82[ASN][1000 genomes]
rs4902444	0.82[ASN][1000 genomes]
rs4902445	0.88[ASN][1000 genomes]
rs4902446	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs56231619	0.82[ASN][1000 genomes]
rs56314928	0.82[ASN][1000 genomes]
rs56892961	0.88[ASN][1000 genomes]
rs57146489	0.88[ASN][1000 genomes]
rs57274818	0.82[ASN][1000 genomes]
rs58000930	0.88[ASN][1000 genomes]
rs59229824	0.88[ASN][1000 genomes]
rs60238746	0.88[ASN][1000 genomes]
rs61085292	0.88[ASN][1000 genomes]
rs73278296	0.88[ASN][1000 genomes]
rs73280006	0.88[ASN][1000 genomes]
rs73280007	0.88[ASN][1000 genomes]
rs768973	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043943	chr14:65782466-66698411	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
2	nsv542120	chr14:65782466-66698411	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
3	nsv817409	chr14:66220075-66990168	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
4	nsv564953	chr14:66287921-67046960	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
5	nsv1050485	chr14:66308283-67109270	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
6	nsv530775	chr14:66316836-67079049	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
7	nsv530793	chr14:66317036-67078908	Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
8	nsv1046455	chr14:66345369-66848234	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
9	nsv1043864	chr14:66372458-66845503	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
10	nsv917338	chr14:66376591-66841403	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1273869	TRAP1	trans	lymphoblastoid	RTeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:66505400-66511400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr14:66505400-66512600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr14:66505600-66511000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr14:66506000-66510400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr14:66506200-66510400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links