Variant report

Variant	rs35210389
Chromosome Location	chr5:49927635-49927636
allele	A/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	FOSL2	chr5:49927347-49927680	HepG2	liver:	n/a	n/a
2	RXRA	chr5:49927335-49927722	HepG2	liver:	n/a	n/a
3	TCF12	chr5:49927340-49927680	HepG2	liver:	n/a	n/a
4	JUND	chr5:49927412-49927652	HepG2	liver:	n/a	n/a
5	FOSL2	chr5:49927382-49927709	HepG2	liver:	n/a	n/a
6	FOXA1	chr5:49927278-49927754	HepG2	liver:	n/a	n/a
7	SP1	chr5:49927324-49927805	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
ENSG00000213956	TF binding region

Extended variants
information (count: 84 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs11950506	1.00[AMR][1000 genomes]
rs11952107	1.00[AMR][1000 genomes]
rs11954064	0.94[AMR][1000 genomes]
rs11955651	1.00[AMR][1000 genomes]
rs11955934	1.00[AMR][1000 genomes]
rs11959326	1.00[AMR][1000 genomes]
rs13153852	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13155662	0.83[AMR][1000 genomes]
rs13156735	1.00[AMR][1000 genomes]
rs13157079	1.00[AMR][1000 genomes]
rs13157952	0.98[EUR][1000 genomes]
rs13159239	1.00[AMR][1000 genomes]
rs13159553	0.91[EUR][1000 genomes]
rs13162663	0.96[EUR][1000 genomes]
rs13162738	0.94[AMR][1000 genomes]
rs13163802	1.00[AMR][1000 genomes]
rs13167408	0.91[EUR][1000 genomes]
rs13169200	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13171248	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13172426	0.82[EUR][1000 genomes]
rs13172836	0.91[EUR][1000 genomes]
rs13174498	1.00[AMR][1000 genomes]
rs13176737	0.83[AMR][1000 genomes]
rs13180485	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13180506	0.91[EUR][1000 genomes]
rs13181031	0.94[AMR][1000 genomes]
rs13181117	1.00[AMR][1000 genomes]
rs13183686	0.91[EUR][1000 genomes]
rs13183910	1.00[AMR][1000 genomes]
rs13186653	1.00[AMR][1000 genomes]
rs13190144	1.00[AMR][1000 genomes]
rs1968637	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2354531	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34002233	0.82[AFR][1000 genomes]
rs34183555	0.83[AMR][1000 genomes]
rs34264957	1.00[AMR][1000 genomes]
rs34414061	1.00[AMR][1000 genomes]
rs34443769	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34677483	1.00[AMR][1000 genomes]
rs34827507	1.00[AMR][1000 genomes]
rs35128589	1.00[AMR][1000 genomes]
rs35292338	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35347195	1.00[AMR][1000 genomes]
rs35434227	0.91[EUR][1000 genomes]
rs35473824	1.00[AMR][1000 genomes]
rs35596019	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs36187734	0.91[EUR][1000 genomes]
rs41270305	1.00[AMR][1000 genomes]
rs6859621	1.00[AMR][1000 genomes]
rs6864439	0.91[AFR][1000 genomes]
rs6880398	1.00[AMR][1000 genomes]
rs6883701	1.00[AMR][1000 genomes]
rs6888271	1.00[AMR][1000 genomes]
rs6888315	1.00[AMR][1000 genomes]
rs6892149	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71615974	0.91[EUR][1000 genomes]
rs71615975	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71615978	1.00[AMR][1000 genomes]
rs71615981	0.94[AMR][1000 genomes]
rs71615984	1.00[AMR][1000 genomes]
rs71615986	0.88[AMR][1000 genomes]
rs71615988	0.83[AMR][1000 genomes]
rs71631479	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs71631481	0.82[EUR][1000 genomes]
rs73095026	0.85[AFR][1000 genomes]
rs7711920	0.82[AFR][1000 genomes]
rs7717073	1.00[AMR][1000 genomes]
rs7723395	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7726225	1.00[AMR][1000 genomes]
rs7730188	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7733931	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016583	chr5:49455624-50116720	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1023140	chr5:49455624-50121623	Enhancers Active TSS Strong transcription ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1022067	chr5:49584188-49960083	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv537758	chr5:49584188-49960083	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv918220	chr5:49584188-50111282	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv931010	chr5:49584189-50118254	Genic enhancers Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv523212	chr5:49597497-50058043	Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	esv2757995	chr5:49748352-50058182	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
9	esv2759342	chr5:49748352-50058182	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
10	nsv964850	chr5:49883635-49942856	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	esv16870	chr5:49885849-49989415	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	esv14399	chr5:49885912-49934455	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
13	nsv969047	chr5:49918610-49934158	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer	TF binding region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs35210389	LOC647121	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:49926400-49934200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
2	chr5:49926600-49934200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
3	chr5:49926800-49934000	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr5:49926800-49934400	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr5:49927200-49928200	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr5:49927200-49929200	Enhancers	Primary T killer memory cells from peripheral blood	blood
7	chr5:49927200-49930600	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr5:49927400-49927800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr5:49927400-49930400	Enhancers	Primary T cells from cord blood	blood
10	chr5:49927400-49931600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr5:49927400-49932400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
12	chr5:49927400-49932800	Enhancers	Primary T helper naive cells fromperipheralblood	blood

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