Variant report

Variant	rs1407608
Chromosome Location	chr13:38055769-38055770
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-POSTN-1	chr13:38055604-38055864	XLOC_010570

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11616246	0.87[ASN][1000 genomes]
rs12866363	0.98[ASN][1000 genomes]
rs12867234	0.98[ASN][1000 genomes]
rs12867661	0.87[ASN][1000 genomes]
rs12873916	0.98[ASN][1000 genomes]
rs12873927	0.98[ASN][1000 genomes]
rs12875580	0.87[ASN][1000 genomes]
rs1407607	1.00[ASN][1000 genomes]
rs17055796	0.98[ASN][1000 genomes]
rs2273893	0.87[ASN][1000 genomes]
rs2281696	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35796075	0.98[ASN][1000 genomes]
rs4943514	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs71439726	0.86[ASN][1000 genomes]
rs9315493	0.93[ASN][1000 genomes]
rs9566225	0.89[CHB][hapmap];0.93[ASN][1000 genomes]
rs9566226	1.00[ASW][hapmap];0.89[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];0.83[YRI][hapmap];0.93[ASN][1000 genomes]
rs9576270	0.83[EUR][1000 genomes]
rs9576273	0.87[ASN][1000 genomes]
rs9576274	0.87[ASN][1000 genomes]
rs9576275	0.87[ASN][1000 genomes]
rs9576278	0.98[ASN][1000 genomes]
rs9576281	0.93[ASN][1000 genomes]
rs9576282	0.93[ASN][1000 genomes]
rs9576283	0.93[ASN][1000 genomes]
rs9635082	0.87[ASN][1000 genomes]
rs9635084	1.00[ASN][1000 genomes]

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	nsv948975	chr13:37281203-38280430	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv899994	chr13:37816086-38087145	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1038850	chr13:37820489-38209571	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	esv34109	chr13:37843819-38276391	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv832582	chr13:37943056-38124252	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1045716	chr13:37952062-38394595	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv832583	chr13:38030752-38202000	Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1407608	STARD13	cis	cerebellum	SCAN

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:38051400-38058200	Weak transcription	NHLF	lung
2	chr13:38053600-38063600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr13:38054000-38056600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr13:38054200-38056400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr13:38054200-38056400	Enhancers	Colon Smooth Muscle	Colon
6	chr13:38054400-38056800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr13:38054800-38055800	Enhancers	Fetal Muscle Leg	muscle
8	chr13:38054800-38057600	Enhancers	Fetal Lung	lung
9	chr13:38055000-38056200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr13:38055000-38056400	Enhancers	Osteobl	bone
11	chr13:38055200-38055800	Enhancers	Ovary	ovary
12	chr13:38055200-38055800	Enhancers	HSMMtube	muscle
13	chr13:38055200-38056000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr13:38055200-38056200	Enhancers	Rectal Smooth Muscle	rectum
15	chr13:38055200-38056400	Enhancers	NH-A	brain
16	chr13:38055200-38056600	Enhancers	Fetal Kidney	kidney
17	chr13:38055200-38056600	Enhancers	Fetal Stomach	stomach
18	chr13:38055200-38056800	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr13:38055400-38056200	Enhancers	Muscle Satellite Cultured Cells	--
20	chr13:38055400-38056600	Enhancers	NHDF-Ad	bronchial
21	chr13:38055600-38055800	ZNF genes & repeats	Aorta	Aorta
22	chr13:38055600-38056200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr13:38055600-38056400	Enhancers	Duodenum Smooth Muscle	Duodenum

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