Variant report

Variant	rs1358771
Chromosome Location	chr6:132451644-132451645
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr6:132451640-132451790	AG04450	lung:	n/a	n/a
2	POLR2A	chr6:132451556-132457610	HUVEC	blood vessel:	n/a	n/a
3	CTCF	chr6:132451640-132451790	AG10803	skin:	n/a	n/a
4	CTCF	chr6:132451640-132451790	HPAF	blood vessel:	n/a	n/a
5	CTCF	chr6:132451620-132451770	HAc	cerebellar:	n/a	n/a

Variant related genes	Relation type
LINC01013	TF binding region

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11154663	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11154665	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];0.99[ASN][1000 genomes]
rs11758168	1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs1358772	1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs1358773	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1807982	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4897558	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs766161	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9493182	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.97[TSI][hapmap];0.90[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9493183	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2762616	chr6:132404708-132584324	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1358771	SGK1	cis	parietal	SCAN

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:132449200-132452600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:132450400-132456600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:132451000-132455600	Enhancers	Fetal Stomach	stomach
4	chr6:132451200-132451800	Enhancers	Brain Anterior Caudate	brain
5	chr6:132451200-132451800	Enhancers	HSMM	muscle
6	chr6:132451200-132452000	Enhancers	HUVEC	blood vessel
7	chr6:132451200-132455000	Enhancers	Primary B cells from peripheral blood	blood
8	chr6:132451200-132455400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr6:132451200-132455600	Enhancers	Fetal Muscle Leg	muscle
10	chr6:132451400-132451800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr6:132451400-132451800	Enhancers	Brain Inferior Temporal Lobe	brain
12	chr6:132451400-132451800	Enhancers	Brain Substantia Nigra	brain
13	chr6:132451400-132452000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr6:132451400-132452000	Enhancers	Muscle Satellite Cultured Cells	--
15	chr6:132451400-132452000	Enhancers	NHDF-Ad	bronchial
16	chr6:132451400-132452200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr6:132451400-132452200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr6:132451400-132452200	Enhancers	Colon Smooth Muscle	Colon
19	chr6:132451400-132452200	Enhancers	Osteobl	bone
20	chr6:132451400-132452400	Enhancers	NH-A	brain
21	chr6:132451400-132452600	Enhancers	Fetal Thymus	thymus
22	chr6:132451400-132453000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr6:132451400-132453200	Enhancers	Sigmoid Colon	Sigmoid Colon
24	chr6:132451400-132453800	Enhancers	H1 Cell Line	embryonic stem cell
25	chr6:132451400-132454400	Enhancers	Ovary	ovary
26	chr6:132451400-132454600	Enhancers	Rectal Smooth Muscle	rectum
27	chr6:132451400-132454800	Enhancers	Right Atrium	heart
28	chr6:132451400-132455400	Enhancers	iPS-18 Cell Line	embryonic stem cell
29	chr6:132451400-132455600	Enhancers	iPS-15b Cell Line	embryonic stem cell
30	chr6:132451400-132455600	Enhancers	NHLF	lung
31	chr6:132451400-132456000	Enhancers	Primary hematopoietic stem cells	blood
32	chr6:132451600-132452000	Enhancers	Primary B cells from cord blood	blood
33	chr6:132451600-132452000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr6:132451600-132452000	Enhancers	Brain Angular Gyrus	brain
35	chr6:132451600-132452400	Flanking Active TSS	Brain Cingulate Gyrus	brain
36	chr6:132451600-132452600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
37	chr6:132451600-132452600	Flanking Active TSS	HSMMtube	muscle
38	chr6:132451600-132452800	Flanking Active TSS	Brain Hippocampus Middle	brain
39	chr6:132451600-132453000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr6:132451600-132453000	Enhancers	Placenta	Placenta
41	chr6:132451600-132453000	Flanking Active TSS	Stomach Smooth Muscle	stomach
42	chr6:132451600-132453400	Enhancers	Fetal Brain Male	brain
43	chr6:132451600-132454000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr6:132451600-132454200	Weak transcription	Aorta	Aorta
45	chr6:132451600-132454400	Enhancers	Fetal Heart	heart
46	chr6:132451600-132454600	Enhancers	Skeletal Muscle Male	skeletal muscle
47	chr6:132451600-132455000	Enhancers	HUES48 Cell Line	embryonic stem cell
48	chr6:132451600-132455000	Enhancers	HUES64 Cell Line	embryonic stem cell
49	chr6:132451600-132455600	Enhancers	ES-I3 Cell Line	embryonic stem cell
50	chr6:132451600-132455600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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