Variant report

Variant	rs10059850
Chromosome Location	chr5:147462582-147462583
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10038561	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10060214	0.84[EUR][1000 genomes]
rs10065129	0.87[EUR][1000 genomes]
rs10069070	0.82[EUR][1000 genomes]
rs10073775	0.86[EUR][1000 genomes]
rs1007977	0.84[EUR][1000 genomes]
rs1007978	0.84[EUR][1000 genomes]
rs1017222	0.86[EUR][1000 genomes]
rs10213857	0.81[EUR][1000 genomes]
rs12108690	0.86[EUR][1000 genomes]
rs12519144	0.84[EUR][1000 genomes]
rs12521759	0.81[EUR][1000 genomes]
rs12521761	0.84[EUR][1000 genomes]
rs1363729	0.82[EUR][1000 genomes]
rs1422995	0.86[EUR][1000 genomes]
rs1422996	0.86[EUR][1000 genomes]
rs1423000	0.86[EUR][1000 genomes]
rs1423001	0.86[EUR][1000 genomes]
rs1423002	0.84[EUR][1000 genomes]
rs1423003	0.84[EUR][1000 genomes]
rs1423004	0.84[EUR][1000 genomes]
rs1423005	0.84[EUR][1000 genomes]
rs1423006	0.83[EUR][1000 genomes]
rs1423007	0.83[EUR][1000 genomes]
rs1609851	0.84[EUR][1000 genomes]
rs1833768	0.84[EUR][1000 genomes]
rs2287772	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3752676	0.86[EUR][1000 genomes]
rs3756688	0.83[EUR][1000 genomes]
rs3822744	0.83[EUR][1000 genomes]
rs4333302	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4357026	0.87[EUR][1000 genomes]
rs4472254	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4510567	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4519912	0.86[EUR][1000 genomes]
rs4529181	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4610447	0.86[EUR][1000 genomes]
rs4705223	0.81[EUR][1000 genomes]
rs62388364	0.84[EUR][1000 genomes]
rs6580517	0.86[EUR][1000 genomes]
rs6580518	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6580519	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6580520	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6864564	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6864920	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6876628	0.86[EUR][1000 genomes]
rs6889688	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6894384	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7707841	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9325061	0.84[EUR][1000 genomes]
rs9325064	0.84[EUR][1000 genomes]
rs9325066	0.84[EUR][1000 genomes]
rs9325068	0.83[EUR][1000 genomes]
rs9325069	0.86[EUR][1000 genomes]
rs986493	0.84[EUR][1000 genomes]
rs986495	0.84[EUR][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	nsv1033838	chr5:147360521-147484014	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv933225	chr5:147395849-147486560	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv883015	chr5:147404281-147751035	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv830515	chr5:147460852-147602247	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv2569672	chr5:147460908-147462821	Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv3380626	chr5:147461509-147463557	ZNF genes & repeats Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
7	esv8009	chr5:147461924-147462646	Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
8	esv1953564	chr5:147461992-147462665	Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
9	esv3526024	chr5:147462048-147462596	Weak transcription	n/a	n/a	inside rSNPs	diseases
10	esv3526026	chr5:147462068-147462593	Weak transcription	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10059850	SPINK5	cis	Muscle Skeletal	GTEx
rs10059850	SPINK5	cis	Adipose Subcutaneous	GTEx
rs10059850	SPINK5	cis	Thyroid	GTEx
rs10059850	SPINK5	cis	Heart Left Ventricle	GTEx

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:147437800-147463800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr5:147450400-147469000	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr5:147450600-147468600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr5:147450800-147474000	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr5:147451000-147470000	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr5:147454000-147470000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr5:147455600-147469000	Weak transcription	Esophagus	oesophagus
8	chr5:147457600-147462600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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