Variant report

Variant	rs1360671
Chromosome Location	chr13:93164133-93164134
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:93164068..93165858-chr13:93167124..93168943,2	K562	blood:

Extended variants
information (count: 66 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs1180898	0.86[CHB][hapmap]
rs1180900	0.91[ASW][hapmap];0.87[CHB][hapmap]
rs12874576	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1333675	0.81[CHB][hapmap]
rs1333677	0.81[CHB][hapmap]
rs1413191	0.90[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.94[MEX][hapmap];0.87[MKK][hapmap];0.92[TSI][hapmap];0.85[YRI][hapmap]
rs1629541	0.81[CHB][hapmap]
rs16947810	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17436336	1.00[ASW][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.88[MEX][hapmap]
rs1855367	0.90[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap];0.90[YRI][hapmap]
rs2149059	0.87[CHB][hapmap]
rs2149060	0.81[CHB][hapmap]
rs2149061	0.81[CHB][hapmap]
rs2209829	1.00[ASW][hapmap];0.93[CHB][hapmap];0.90[CHD][hapmap];0.88[GIH][hapmap];0.86[JPT][hapmap];0.91[LWK][hapmap];0.81[MEX][hapmap];0.80[YRI][hapmap];0.82[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2209832	0.91[ASW][hapmap];0.81[CHB][hapmap]
rs2374031	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2780742	0.81[CHB][hapmap]
rs2780744	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs364383	0.81[CHB][hapmap]
rs4144426	0.81[CHB][hapmap]
rs4384477	0.81[CHB][hapmap]
rs449674	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap]
rs4542527	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs55803730	0.82[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs6492610	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6492611	1.00[ASW][hapmap];0.93[CHB][hapmap];0.90[CHD][hapmap];0.94[GIH][hapmap];0.86[JPT][hapmap];0.88[LWK][hapmap];0.82[MEX][hapmap];0.93[MKK][hapmap];0.81[TSI][hapmap];0.85[AFR][1000 genomes];0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6492616	0.87[ASN][1000 genomes]
rs722178	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs727986	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.87[ASN][1000 genomes]
rs7317407	0.81[AFR][1000 genomes]
rs7318268	0.85[CHB][hapmap]
rs7490474	0.84[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs7981855	0.81[CHB][hapmap]
rs7984374	0.82[ASN][1000 genomes]
rs7984842	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7992204	0.81[CHB][hapmap]
rs7993864	0.81[CHB][hapmap]
rs7998089	0.90[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.94[MEX][hapmap];0.87[MKK][hapmap];0.90[YRI][hapmap];0.81[AFR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9516088	0.80[CHB][hapmap]
rs9516089	0.87[CHB][hapmap]
rs9516091	0.81[CHB][hapmap]
rs9523689	0.81[CHB][hapmap]
rs9523690	0.81[CHB][hapmap]
rs9523692	0.81[CHB][hapmap]
rs9523693	0.81[CHB][hapmap]
rs9556183	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9556188	0.81[CHB][hapmap]
rs9561068	0.81[CHB][hapmap]
rs9561069	0.81[CHB][hapmap]
rs9561073	0.81[CHB][hapmap]
rs9561075	0.81[CHB][hapmap]
rs9561076	0.81[CHB][hapmap]
rs9561077	0.81[CHB][hapmap]
rs9561078	0.81[CHB][hapmap];0.81[YRI][hapmap]
rs9561079	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9561080	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9584032	0.81[CHB][hapmap]
rs974419	0.81[CHB][hapmap]
rs993485	0.81[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832680	chr13:93021114-93181489	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
2	nsv471168	chr13:93138577-93208593	Enhancers Weak transcription Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA miRNA	1 gene(s)	inside rSNPs	diseases
3	nsv900904	chr13:93138577-93208593	Enhancers Weak transcription ZNF genes & repeats Genic enhancers	TF binding region Chromatin interactive region lncRNA miRNA	1 gene(s)	inside rSNPs	diseases
4	nsv900905	chr13:93138577-93211339	Enhancers Weak transcription Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA miRNA	1 gene(s)	inside rSNPs	diseases
5	nsv562728	chr13:93142706-93208593	Weak transcription Enhancers Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv456069	chr13:93161846-93204427	Enhancers Weak transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv562729	chr13:93161846-93204427	Enhancers Weak transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1360671	GPC5	cis	parietal	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:93157000-93165200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr13:93163200-93164200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr13:93163200-93164400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr13:93163200-93165000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr13:93163200-93165200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr13:93163200-93165200	Weak transcription	NH-A	brain
7	chr13:93163200-93166600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr13:93164000-93164200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr13:93164000-93164200	Enhancers	NHEK	skin

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