Variant report

Variant	rs7909570
Chromosome Location	chr10:18974351-18974352
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:18973620..18975663-chr10:18978657..18981110,2	K562	blood:
2	chr10:18969086..18970965-chr10:18973281..18975325,2	K562	blood:

Extended variants
information (count: 78 )
Associated
traits (count: 11 )

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs1027193	0.82[ASN][1000 genomes]
rs1055116	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10734063	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10741111	0.83[ASN][1000 genomes]
rs10741115	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10741129	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10741132	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10764582	0.82[AMR][1000 genomes]
rs10764600	0.87[AMR][1000 genomes]
rs10764601	0.85[AMR][1000 genomes]
rs10764603	0.85[AMR][1000 genomes]
rs10764625	0.81[ASN][1000 genomes]
rs10764640	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10764691	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10828870	0.82[AMR][1000 genomes]
rs10828871	0.82[AMR][1000 genomes]
rs10828872	0.86[AMR][1000 genomes]
rs10828896	0.84[AMR][1000 genomes]
rs10828911	0.87[AMR][1000 genomes]
rs10828965	0.87[AMR][1000 genomes]
rs10828975	0.87[AMR][1000 genomes]
rs10828991	0.81[ASN][1000 genomes]
rs10829009	0.81[ASN][1000 genomes]
rs10829022	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10829037	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10829039	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10829040	0.83[AMR][1000 genomes]
rs10829058	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10829060	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10829070	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10829148	0.88[EUR][1000 genomes]
rs10829151	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10829213	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11014892	0.86[AMR][1000 genomes]
rs11015048	0.87[AMR][1000 genomes]
rs11015196	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11015255	0.87[AMR][1000 genomes]
rs11015312	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11015421	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11525266	0.84[AMR][1000 genomes]
rs11540309	0.92[ASN][1000 genomes]
rs12219183	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12359758	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12569474	0.84[AMR][1000 genomes]
rs12782882	0.82[ASN][1000 genomes]
rs2272274	0.82[AMR][1000 genomes]
rs3740102	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4748488	0.88[AMR][1000 genomes]
rs4748492	0.87[AMR][1000 genomes]
rs4748509	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5022622	0.81[ASN][1000 genomes]
rs57066269	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57579336	0.87[AMR][1000 genomes]
rs62636218	0.87[AMR][1000 genomes]
rs6482533	0.87[AMR][1000 genomes]
rs6482597	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7077722	0.87[AMR][1000 genomes]
rs7079325	0.87[AMR][1000 genomes]
rs7081461	0.81[ASN][1000 genomes]
rs7081690	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7081977	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7087030	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7099260	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7100880	0.85[ASN][1000 genomes]
rs72787963	0.85[AMR][1000 genomes]
rs7894016	0.87[AMR][1000 genomes]
rs7896918	0.88[ASN][1000 genomes]
rs7898781	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7899017	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7901598	0.87[AMR][1000 genomes]
rs7904263	0.85[AMR][1000 genomes]
rs7909845	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7910902	0.97[ASN][1000 genomes]
rs7917584	0.81[AMR][1000 genomes]
rs7922005	0.90[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	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv466762	chr10:18932172-18976659	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv550121	chr10:18932172-18976659	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:11)

SNP	Gene	Cis/trans	Tissue	Source
rs7909570	NSUN6	Cis_1M	lymphoblastoid	RTeQTL
rs7909570	RP11-499P20.2	cis	Whole Blood	GTEx
rs7909570	RP11-499P20.2	cis	Thyroid	GTEx
rs7909570	RP11-499P20.2	cis	Skin Sun Exposed Lower leg	GTEx
rs7909570	RP11-499P20.2	cis	lung	GTEx
rs7909570	RP11-499P20.2	cis	Esophagus Mucosa	GTEx
rs7909570	ARL5B	cis	multi-tissue	Pritchard
rs7909570	ARL5B	Cis_1M	lymphoblastoid	RTeQTL
rs7909570	NSUN6	cis	lung	GTEx
rs7909570	RP11-499P20.2	cis	Nerve Tibial	GTEx
rs7909570	CACNB2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18951000-18976400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr10:18966200-18976000	Weak transcription	HepG2	liver
3	chr10:18966600-18974600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr10:18968400-18978800	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr10:18969800-18974800	Enhancers	Hela-S3	cervix
6	chr10:18971800-18975000	Weak transcription	Dnd41	blood
7	chr10:18973200-18974400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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