Variant report

Variant	rs11024029
Chromosome Location	chr11:16759078-16759079
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10766338	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10766342	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10832632	0.82[AMR][1000 genomes]
rs10832638	0.85[AMR][1000 genomes]
rs10832644	0.87[AMR][1000 genomes]
rs10832645	0.82[AMR][1000 genomes]
rs10832650	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10832651	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10832652	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10832676	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10832677	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11023985	0.87[AMR][1000 genomes]
rs11023990	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11023991	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11024014	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11024030	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11024032	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11529598	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11826990	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12223732	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12418941	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12421422	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12421640	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1392999	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1472589	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1532672	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2270886	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3203295	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34952258	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4132991	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4237714	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4307685	0.85[AMR][1000 genomes]
rs4447141	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4756858	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4756861	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4757410	0.85[AMR][1000 genomes]
rs4757414	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4757425	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4757429	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61881966	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61883867	0.84[AMR][1000 genomes]
rs61883868	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7481820	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9704273	0.85[AMR][1000 genomes]
rs981987	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv553566	chr11:16329009-16799044	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	esv2358820	chr11:16759079-16759080	Enhancers Active TSS Flanking Active TSS Weak transcription	TF binding region Chromatin interactive region	4 gene(s)	n/a	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11024029	PTH	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16748200-16759400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr11:16759000-16759200	Enhancers	Primary T cells from cord blood	blood
3	chr11:16759000-16759200	Enhancers	Primary T helper cells PMA-I stimulated	--
4	chr11:16759000-16759200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
5	chr11:16759000-16759200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr11:16759000-16759200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr11:16759000-16759200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr11:16759000-16759200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr11:16759000-16759200	Enhancers	Liver	Liver
10	chr11:16759000-16759200	Enhancers	Brain Substantia Nigra	brain
11	chr11:16759000-16759200	Enhancers	Colon Smooth Muscle	Colon
12	chr11:16759000-16759200	Enhancers	Fetal Brain Male	brain
13	chr11:16759000-16759200	Enhancers	Fetal Stomach	stomach
14	chr11:16759000-16759200	Enhancers	Fetal Thymus	thymus
15	chr11:16759000-16759200	Enhancers	Dnd41	blood
16	chr11:16759000-16759200	Enhancers	GM12878-XiMat	blood
17	chr11:16759000-16759200	Enhancers	HMEC	breast
18	chr11:16759000-16759200	Enhancers	HUVEC	blood vessel
19	chr11:16759000-16759400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr11:16759000-16761200	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr11:16759000-16761200	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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