Variant report

Variant	rs11636795
Chromosome Location	chr15:49676102-49676103
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10047970	0.86[CEU][hapmap]
rs10083602	0.81[EUR][1000 genomes]
rs10519230	1.00[CEU][hapmap];0.96[CHB][hapmap];0.91[JPT][hapmap];0.91[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11070692	0.87[YRI][hapmap]
rs11070693	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.91[YRI][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11070694	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11070696	0.81[CEU][hapmap]
rs11630629	0.89[CEU][hapmap]
rs11631040	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11631687	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11632674	0.86[CEU][hapmap]
rs11634751	0.86[CEU][hapmap]
rs11636378	0.82[CEU][hapmap]
rs11636671	0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs11638378	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11852524	1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.86[YRI][hapmap]
rs12438444	0.81[AMR][1000 genomes]
rs12438856	0.81[EUR][1000 genomes]
rs12439479	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12440323	0.86[CEU][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12440534	0.90[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap]
rs12441004	0.80[AMR][1000 genomes]
rs12441304	0.86[CEU][hapmap]
rs12442143	0.81[EUR][1000 genomes]
rs12900001	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12913745	0.91[CEU][hapmap];0.83[CHB][hapmap];0.91[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1429556	0.87[YRI][hapmap];0.81[AFR][1000 genomes]
rs1532955	0.86[CEU][hapmap]
rs1588130	0.86[CEU][hapmap]
rs1605481	0.86[CEU][hapmap]
rs16962243	0.82[CEU][hapmap]
rs16962486	0.86[AFR][1000 genomes]
rs16962490	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.91[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16962528	0.81[EUR][1000 genomes]
rs16973952	0.81[EUR][1000 genomes]
rs17401417	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1874615	0.86[CEU][hapmap]
rs1904317	0.91[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap]
rs1911614	0.86[CEU][hapmap]
rs2413942	0.90[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap];0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2413946	0.81[EUR][1000 genomes]
rs2413953	0.86[CEU][hapmap]
rs2413954	0.86[CEU][hapmap]
rs2413959	0.86[CEU][hapmap]
rs2899433	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs3105865	0.91[CEU][hapmap];0.95[CHB][hapmap]
rs3105867	0.91[CEU][hapmap]
rs4303431	0.86[CEU][hapmap]
rs4316697	0.86[YRI][hapmap]
rs4350524	0.86[CEU][hapmap]
rs4614670	0.81[EUR][1000 genomes]
rs4775803	0.91[CEU][hapmap];0.91[CHB][hapmap]
rs4775814	0.86[CEU][hapmap]
rs4775815	0.86[CEU][hapmap]
rs520949	0.87[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap]
rs58410445	0.81[EUR][1000 genomes]
rs586758	0.91[CEU][hapmap];0.95[CHB][hapmap]
rs641077	0.91[CEU][hapmap];0.91[CHB][hapmap]
rs6493364	0.91[CEU][hapmap];0.91[CHB][hapmap];0.82[JPT][hapmap];0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs6493369	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6493371	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs6493376	0.86[CEU][hapmap]
rs7166049	0.81[EUR][1000 genomes]
rs7166202	0.86[CEU][hapmap]
rs7166498	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs7167041	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs7167429	0.86[CEU][hapmap]
rs7170426	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs7178143	0.86[CEU][hapmap]
rs7178468	0.86[CEU][hapmap]
rs733097	0.86[CEU][hapmap]
rs8026236	0.81[EUR][1000 genomes]
rs8032650	0.91[CEU][hapmap];0.95[CHB][hapmap]
rs8034747	0.84[YRI][hapmap]
rs8035468	0.86[CEU][hapmap]
rs8041781	0.91[CEU][hapmap];0.91[CHB][hapmap]
rs965134	0.86[CEU][hapmap]
rs9920772	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9972329	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs9972429	0.81[EUR][1000 genomes]
rs9972565	0.81[EUR][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	nsv1039368	chr15:49566094-49764066	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv833002	chr15:49621400-49781799	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv442375	chr15:49652524-49684082	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11636795	GALK2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49673400-49676200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:49673600-49676200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr15:49673800-49683400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr15:49674400-49677400	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr15:49674600-49676400	Enhancers	Hela-S3	cervix
6	chr15:49675200-49676200	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr15:49675200-49676400	Enhancers	Muscle Satellite Cultured Cells	--
8	chr15:49675400-49676800	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr15:49675400-49676800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr15:49675400-49676800	Enhancers	NHLF	lung
11	chr15:49675800-49676400	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr15:49675800-49676400	Enhancers	Primary hematopoietic stem cells	blood
13	chr15:49676000-49676800	Enhancers	H1 Cell Line	embryonic stem cell
14	chr15:49676000-49676800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr15:49676000-49676800	Enhancers	H9 Cell Line	embryonic stem cell

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