Variant report

Variant	rs73348959
Chromosome Location	chr14:45382386-45382387
allele	C/G
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	POLR2A	chr14:45382267-45382394	HepG2	liver:	n/a	n/a
2	POLR2A	chr14:45382153-45382418	HepG2	liver:	n/a	n/a
3	POLR2A	chr14:45382092-45382411	HepG2	liver:	n/a	n/a
4	NFYB	chr14:45381752-45382439	K562	blood:	n/a	n/a
5	CTCF	chr14:45382190-45383400	A549	lung:	n/a	chr14:45383038-45383045 chr14:45383036-45383057
6	TBP	chr14:45382098-45382407	HepG2	liver:	n/a	n/a
7	NFYB	chr14:45381741-45382423	GM12878	blood:	n/a	n/a
8	HEY1	chr14:45382151-45382410	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr14:45380875..45383162-chr14:45604875..45606595,2	MCF-7	breast:
2	chr14:45382331..45385097-chr14:45486659..45488651,2	MCF-7	breast:
3	chr14:45380945..45382495-chr14:45429574..45431197,2	MCF-7	breast:
4	chr14:45373435..45375914-chr14:45381122..45384110,3	MCF-7	breast:
5	chr14:45381313..45383842-chr14:45552963..45554882,2	K562	blood:

Variant related genes	Relation type
ENSG00000258949	TF binding region
ENSG00000185246	Chromatin interaction
ENSG00000179454	Chromatin interaction
ENSG00000187790	Chromatin interaction
ENSG00000249163	Chromatin interaction

Extended variants
information (count: 137 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:128)

rs_ID	r²[population]
rs10083439	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10129173	0.85[EUR][1000 genomes]
rs10134071	0.82[EUR][1000 genomes]
rs10135890	0.82[EUR][1000 genomes]
rs10136008	0.80[EUR][1000 genomes]
rs10136855	0.85[EUR][1000 genomes]
rs10139998	0.85[EUR][1000 genomes]
rs10140013	0.83[EUR][1000 genomes]
rs10140049	0.85[EUR][1000 genomes]
rs10140108	0.87[EUR][1000 genomes]
rs10140222	0.82[EUR][1000 genomes]
rs10140318	0.82[EUR][1000 genomes]
rs10145092	0.82[EUR][1000 genomes]
rs10145267	0.83[EUR][1000 genomes]
rs10146395	0.82[EUR][1000 genomes]
rs10147499	0.82[EUR][1000 genomes]
rs10149484	0.85[EUR][1000 genomes]
rs10150646	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10152101	0.87[EUR][1000 genomes]
rs1053667	0.80[EUR][1000 genomes]
rs11157423	0.87[EUR][1000 genomes]
rs11157424	0.87[EUR][1000 genomes]
rs11845088	0.85[EUR][1000 genomes]
rs11845904	0.89[EUR][1000 genomes]
rs11845956	0.82[EUR][1000 genomes]
rs11846656	0.85[EUR][1000 genomes]
rs11847039	0.89[EUR][1000 genomes]
rs11848334	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11848799	0.87[EUR][1000 genomes]
rs11849208	0.82[EUR][1000 genomes]
rs11849583	0.85[EUR][1000 genomes]
rs11850363	0.85[EUR][1000 genomes]
rs11851218	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11851357	0.89[EUR][1000 genomes]
rs11851516	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11851962	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11852210	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12100842	0.82[EUR][1000 genomes]
rs1593279	0.89[EUR][1000 genomes]
rs17115639	0.89[EUR][1000 genomes]
rs17115646	0.89[EUR][1000 genomes]
rs17115648	0.89[EUR][1000 genomes]
rs17115652	0.89[EUR][1000 genomes]
rs17115677	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17115688	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17115703	0.87[EUR][1000 genomes]
rs17115718	0.85[EUR][1000 genomes]
rs17115787	0.82[EUR][1000 genomes]
rs2295157	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2295158	0.98[ASN][1000 genomes]
rs2295160	0.98[ASN][1000 genomes]
rs28432035	0.89[EUR][1000 genomes]
rs28448551	0.82[EUR][1000 genomes]
rs28517769	0.85[EUR][1000 genomes]
rs28558522	0.87[EUR][1000 genomes]
rs28572336	0.82[EUR][1000 genomes]
rs28594810	0.82[EUR][1000 genomes]
rs28622413	0.82[EUR][1000 genomes]
rs28681969	0.82[EUR][1000 genomes]
rs28695721	0.87[EUR][1000 genomes]
rs28703636	0.85[EUR][1000 genomes]
rs2899960	0.85[EUR][1000 genomes]
rs3736747	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3825629	0.85[EUR][1000 genomes]
rs56386358	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56706956	0.82[EUR][1000 genomes]
rs57129780	0.87[EUR][1000 genomes]
rs57147026	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57614513	0.82[EUR][1000 genomes]
rs57694277	0.82[EUR][1000 genomes]
rs58013518	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58338525	0.89[EUR][1000 genomes]
rs58920861	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59992752	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60521816	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60595870	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60891427	0.82[EUR][1000 genomes]
rs61707578	0.82[EUR][1000 genomes]
rs6572290	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs66488071	0.85[EUR][1000 genomes]
rs66535982	0.85[EUR][1000 genomes]
rs66662385	0.87[EUR][1000 genomes]
rs67643245	0.85[EUR][1000 genomes]
rs7140739	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7145831	0.85[EUR][1000 genomes]
rs7145870	0.87[EUR][1000 genomes]
rs7147811	0.82[EUR][1000 genomes]
rs7151557	0.87[EUR][1000 genomes]
rs7158846	0.87[EUR][1000 genomes]
rs72474137	0.96[ASN][1000 genomes]
rs73334104	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73334112	0.89[EUR][1000 genomes]
rs73334114	0.89[EUR][1000 genomes]
rs73334131	0.89[EUR][1000 genomes]
rs73334135	0.87[EUR][1000 genomes]
rs73334148	0.87[EUR][1000 genomes]
rs73334154	0.87[EUR][1000 genomes]
rs73334157	0.87[EUR][1000 genomes]
rs73334162	0.87[EUR][1000 genomes]
rs73334165	0.87[EUR][1000 genomes]
rs73334172	0.87[EUR][1000 genomes]
rs73334176	0.87[EUR][1000 genomes]
rs73334913	0.82[EUR][1000 genomes]
rs73346336	0.83[EUR][1000 genomes]
rs73346344	0.87[EUR][1000 genomes]
rs73346351	0.85[EUR][1000 genomes]
rs73346360	0.85[EUR][1000 genomes]
rs73348069	0.82[EUR][1000 genomes]
rs73348076	0.82[EUR][1000 genomes]
rs73348079	0.82[EUR][1000 genomes]
rs73348088	0.82[EUR][1000 genomes]
rs73348095	0.82[EUR][1000 genomes]
rs73348939	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73348947	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73348950	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73348953	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73348966	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73348975	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73348977	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73348981	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73348987	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73350201	0.85[EUR][1000 genomes]
rs73352233	0.82[EUR][1000 genomes]
rs7493246	0.85[EUR][1000 genomes]
rs7493823	0.82[EUR][1000 genomes]
rs8015453	0.82[EUR][1000 genomes]
rs8022008	0.85[EUR][1000 genomes]
rs8022608	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869289	chr14:44752382-45447415	Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv901832	chr14:44847444-45415597	Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv995092	chr14:44973489-45393462	Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
4	nsv1047886	chr14:45189653-45543182	Strong transcription Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
5	nsv542079	chr14:45189653-45543182	Active TSS Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
6	nsv901841	chr14:45198196-45719643	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
7	nsv1053437	chr14:45232269-45424222	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
8	esv1795667	chr14:45361680-45721052	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
9	esv1794986	chr14:45368685-45650813	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs73348959	RP11-398E10.1	cis	Nerve Tibial	GTEx

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:45368200-45397400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr14:45375400-45403000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr14:45381000-45383800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr14:45381200-45382800	Weak transcription	Fetal Heart	heart
5	chr14:45381800-45382800	Weak transcription	Osteobl	bone
6	chr14:45381800-45384000	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr14:45381800-45384000	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr14:45381800-45384000	Weak transcription	NHDF-Ad	bronchial
9	chr14:45381800-45384200	Weak transcription	Gastric	stomach
10	chr14:45382000-45382600	Weak transcription	Stomach Smooth Muscle	stomach
11	chr14:45382000-45382800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr14:45382000-45383000	Enhancers	Colon Smooth Muscle	Colon
13	chr14:45382000-45384000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr14:45382000-45384000	Weak transcription	Brain Cingulate Gyrus	brain
15	chr14:45382000-45384000	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr14:45382000-45384000	Weak transcription	Right Atrium	heart
17	chr14:45382000-45384200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr14:45382000-45400600	Weak transcription	Left Ventricle	heart
19	chr14:45382000-45408000	Weak transcription	Pancreas	Pancrea
20	chr14:45382200-45382600	Flanking Active TSS	HepG2	liver
21	chr14:45382200-45383200	Enhancers	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links