Variant report

Variant	rs11584
Chromosome Location	chr5:100145388-100145389
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:100139903..100141553-chr5:100144664..100147138,2	K562	blood:
2	chr5:100144085..100145969-chr5:100148145..100150652,2	K562	blood:

Extended variants
information (count: 80 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10043056	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs10057237	0.85[EUR][1000 genomes]
rs10058901	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10059846	0.87[ASN][1000 genomes]
rs10059953	0.83[EUR][1000 genomes]
rs10060686	0.83[EUR][1000 genomes]
rs10069305	0.87[ASN][1000 genomes]
rs10075853	0.92[GIH][hapmap];0.89[TSI][hapmap];0.86[EUR][1000 genomes]
rs10078251	0.85[EUR][1000 genomes]
rs10214216	0.80[EUR][1000 genomes]
rs10477661	0.84[EUR][1000 genomes]
rs10478598	0.86[EUR][1000 genomes]
rs10478599	0.92[GIH][hapmap];0.89[TSI][hapmap];0.86[EUR][1000 genomes]
rs10478633	0.86[ASN][1000 genomes]
rs10478649	0.84[EUR][1000 genomes]
rs11741369	0.85[EUR][1000 genomes]
rs11748306	0.82[EUR][1000 genomes]
rs12153670	0.87[GIH][hapmap];0.81[TSI][hapmap]
rs12332145	0.86[EUR][1000 genomes]
rs12332642	0.86[EUR][1000 genomes]
rs12719316	0.85[EUR][1000 genomes]
rs13355889	1.00[CHB][hapmap];0.88[CHD][hapmap];0.81[TSI][hapmap];0.87[ASN][1000 genomes]
rs13357545	0.86[EUR][1000 genomes]
rs13358325	0.87[GIH][hapmap];0.81[TSI][hapmap]
rs13436424	0.86[EUR][1000 genomes]
rs13857	0.86[EUR][1000 genomes]
rs1423380	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[CHD][hapmap];0.82[GIH][hapmap];0.90[JPT][hapmap];0.86[MKK][hapmap];0.94[TSI][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1423384	1.00[CHB][hapmap];0.82[CHD][hapmap];0.90[JPT][hapmap];0.81[MKK][hapmap];0.81[TSI][hapmap];0.89[ASN][1000 genomes]
rs1423385	0.89[ASN][1000 genomes]
rs1428439	0.81[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.94[TSI][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17726244	0.84[EUR][1000 genomes]
rs17782250	0.81[CEU][hapmap];0.83[CHB][hapmap];0.94[TSI][hapmap];0.81[EUR][1000 genomes]
rs1820150	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2059846	0.91[ASN][1000 genomes]
rs2400313	1.00[CHB][hapmap];0.82[CHD][hapmap];0.81[TSI][hapmap];0.83[ASN][1000 genomes]
rs2544913	0.91[CEU][hapmap];0.88[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2544920	1.00[CEU][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2548256	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2548257	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2548261	0.83[EUR][1000 genomes]
rs2548263	1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[YRI][hapmap];0.92[ASN][1000 genomes]
rs2548264	0.84[EUR][1000 genomes]
rs2548265	0.82[EUR][1000 genomes]
rs2548274	0.84[EUR][1000 genomes]
rs2548276	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2548278	0.89[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.94[GIH][hapmap];0.90[JPT][hapmap];0.89[LWK][hapmap];0.92[MKK][hapmap];0.94[TSI][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2548279	1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[YRI][hapmap];0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2548280	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2725116	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2725124	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.98[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3756351	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3756352	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs3756353	1.00[CHB][hapmap];0.88[CHD][hapmap];0.81[TSI][hapmap];0.87[ASN][1000 genomes]
rs3756354	1.00[CHB][hapmap];0.88[CHD][hapmap];0.81[TSI][hapmap];0.85[ASN][1000 genomes]
rs3756355	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs3776155	0.86[EUR][1000 genomes]
rs3776167	0.87[GIH][hapmap];0.81[TSI][hapmap]
rs3776168	1.00[CHB][hapmap];0.90[JPT][hapmap];0.93[YRI][hapmap];0.90[ASN][1000 genomes]
rs3776170	0.88[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.84[GIH][hapmap];0.90[JPT][hapmap];0.81[MKK][hapmap];0.94[TSI][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3776171	0.81[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3776174	0.86[ASN][1000 genomes]
rs3776176	0.88[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3843478	0.86[EUR][1000 genomes]
rs3846626	0.83[EUR][1000 genomes]
rs3909452	0.88[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.87[LWK][hapmap];0.83[MKK][hapmap];0.89[TSI][hapmap];0.89[YRI][hapmap];0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3909453	0.86[EUR][1000 genomes]
rs4703116	0.83[EUR][1000 genomes]
rs4703130	0.88[ASN][1000 genomes]
rs4703133	0.86[EUR][1000 genomes]
rs55817847	0.81[EUR][1000 genomes]
rs59030588	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs60663279	0.87[ASN][1000 genomes]
rs60853907	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6864315	0.83[EUR][1000 genomes]
rs72776700	0.84[EUR][1000 genomes]
rs7703643	0.92[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7737721	0.89[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.94[GIH][hapmap];0.86[JPT][hapmap];0.93[LWK][hapmap];0.96[MKK][hapmap];0.94[TSI][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[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	nsv1021183	chr5:99625857-100221426	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
2	nsv1023765	chr5:99915011-100733755	Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
3	esv1834675	chr5:100143084-100535029	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11584	ST8SIA4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:100139000-100146400	Weak transcription	Primary B cells from cord blood	blood
2	chr5:100139400-100154400	Weak transcription	Fetal Lung	lung
3	chr5:100139400-100155400	Weak transcription	Placenta	Placenta
4	chr5:100139600-100149200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr5:100140200-100147000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr5:100140800-100147200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr5:100141800-100147000	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr5:100142200-100147000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr5:100142400-100146400	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr5:100142400-100150000	Strong transcription	Dnd41	blood
11	chr5:100142400-100154000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr5:100142600-100147000	Weak transcription	Primary T cells from cord blood	blood
13	chr5:100142600-100150000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr5:100143000-100146400	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr5:100143000-100146600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr5:100143000-100146800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr5:100143000-100147000	Weak transcription	Primary hematopoietic stem cells	blood
18	chr5:100143000-100150000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr5:100143200-100146400	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr5:100143400-100146800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr5:100143400-100163200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr5:100143800-100145600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr5:100143800-100147000	Strong transcription	Monocytes-CD14+_RO01746	blood
24	chr5:100144400-100148000	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr5:100144600-100147000	Weak transcription	Thymus	Thymus
26	chr5:100144600-100147400	Weak transcription	Duodenum Mucosa	Duodenum
27	chr5:100144800-100145600	Weak transcription	Fetal Thymus	thymus
28	chr5:100144800-100146000	Weak transcription	GM12878-XiMat	blood
29	chr5:100144800-100146400	Weak transcription	Primary B cells from peripheral blood	blood
30	chr5:100145200-100147000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr5:100145200-100147000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links