Variant report

Variant	rs153580
Chromosome Location	chr5:115683307-115683308
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10041741	0.81[AMR][1000 genomes]
rs10073350	0.81[AMR][1000 genomes]
rs1090078	0.82[ASN][1000 genomes]
rs12109104	0.80[JPT][hapmap]
rs153595	0.83[AMR][1000 genomes]
rs1669136	0.84[JPT][hapmap]
rs1677406	0.80[JPT][hapmap]
rs1677415	0.83[ASN][1000 genomes]
rs185263	0.90[JPT][hapmap]
rs253950	0.80[JPT][hapmap]
rs253961	0.81[ASN][1000 genomes]
rs253962	0.85[AMR][1000 genomes]
rs254151	0.90[JPT][hapmap]
rs254173	0.80[JPT][hapmap]
rs254174	0.80[JPT][hapmap]
rs27368	0.82[ASN][1000 genomes]
rs27634	0.86[AMR][1000 genomes]
rs28031	0.82[ASN][1000 genomes]
rs712579	0.89[ASN][1000 genomes]
rs712588	0.89[ASN][1000 genomes]
rs712592	0.89[ASN][1000 genomes]
rs712593	0.89[ASN][1000 genomes]
rs712594	0.89[ASN][1000 genomes]
rs712595	0.89[ASN][1000 genomes]
rs712596	0.89[ASN][1000 genomes]
rs712597	0.89[ASN][1000 genomes]
rs712598	0.89[ASN][1000 genomes]
rs712599	0.89[ASN][1000 genomes]
rs712600	0.89[ASN][1000 genomes]
rs785374	0.89[ASN][1000 genomes]
rs803967	0.80[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34146	chr5:115315944-115729919	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	esv2755349	chr5:115384101-115733101	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	nsv882746	chr5:115566026-115704566	Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1017983	chr5:115578765-115713688	Weak transcription ZNF genes & repeats Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv869754	chr5:115634234-115696094	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv4968	chr5:115635771-115714856	Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent/Poised TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs153580	COMMD10	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:115649000-115692800	Weak transcription	Fetal Heart	heart
2	chr5:115666800-115683600	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr5:115672200-115683400	Weak transcription	Primary B cells from cord blood	blood
4	chr5:115678400-115684000	Weak transcription	Primary hematopoietic stem cells	blood
5	chr5:115679000-115686800	Weak transcription	Primary T cells from cord blood	blood
6	chr5:115679800-115686800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr5:115679800-115686800	Weak transcription	Left Ventricle	heart
8	chr5:115680000-115683800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr5:115680000-115684000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr5:115680000-115693200	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr5:115680200-115684000	Weak transcription	Aorta	Aorta
12	chr5:115680600-115695800	Weak transcription	Ovary	ovary
13	chr5:115681200-115683400	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr5:115683200-115684600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
15	chr5:115683200-115689000	Weak transcription	Primary T helper cells PMA-I stimulated	--

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