Variant report

Variant	rs9600567
Chromosome Location	chr13:76445316-76445317
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AL359392.1-1	chr13:76445174-76445379	XLOC_010433

Extended variants
information (count: 6 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs7335875	1.00[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs8001647	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832646	chr13:76300428-76483102	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	esv2758333	chr13:76321610-76542003	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	esv2759950	chr13:76321610-76542003	Weak transcription Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv832649	chr13:76424872-76657891	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9600567	KCTD12	cis	cerebellum	SCAN
rs9600567	C13orf45	cis	Nerve Tibial	GTEx

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:76440000-76469200	Weak transcription	HSMM	muscle
2	chr13:76443200-76445400	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr13:76443400-76445600	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr13:76444000-76445400	Active TSS	Osteobl	bone
5	chr13:76444200-76445400	Active TSS	NHDF-Ad	bronchial
6	chr13:76444400-76445600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr13:76444400-76451000	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr13:76444600-76445400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr13:76444600-76445400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr13:76444600-76445400	Active TSS	Aorta	Aorta
11	chr13:76444600-76445400	Active TSS	Fetal Lung	lung
12	chr13:76444600-76445400	Active TSS	Right Atrium	heart
13	chr13:76444600-76445400	Active TSS	Skeletal Muscle Male	skeletal muscle
14	chr13:76444600-76445400	Active TSS	A549	lung
15	chr13:76444600-76445400	Active TSS	NHLF	lung
16	chr13:76444600-76445600	Active TSS	Adipose Nuclei	Adipose
17	chr13:76444600-76445600	Active TSS	Brain Substantia Nigra	brain
18	chr13:76444600-76445600	Active TSS	Fetal Muscle Trunk	muscle
19	chr13:76444600-76449600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr13:76444800-76445400	Enhancers	Primary T killer memory cells from peripheral blood	blood
21	chr13:76444800-76445400	Weak transcription	Fetal Brain Female	brain
22	chr13:76444800-76445400	Active TSS	HepG2	liver
23	chr13:76444800-76449000	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr13:76444800-76450400	Weak transcription	Fetal Heart	heart
25	chr13:76445000-76445400	Enhancers	Primary T cells from cord blood	blood
26	chr13:76445000-76445400	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr13:76445000-76446000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
28	chr13:76445000-76446800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr13:76445000-76447200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr13:76445000-76449400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr13:76445000-76449400	Weak transcription	Fetal Thymus	thymus
32	chr13:76445000-76449600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
33	chr13:76445000-76450200	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr13:76445000-76450200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr13:76445000-76450400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr13:76445000-76450400	Weak transcription	Fetal Intestine Small	intestine
37	chr13:76445000-76450400	Weak transcription	GM12878-XiMat	blood
38	chr13:76445000-76450600	Weak transcription	Stomach Smooth Muscle	stomach
39	chr13:76445000-76450800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr13:76445000-76451000	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr13:76445200-76445400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr13:76445200-76445400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr13:76445200-76445400	Enhancers	Duodenum Mucosa	Duodenum
44	chr13:76445200-76445400	Flanking Active TSS	Placenta	Placenta
45	chr13:76445200-76445400	Active TSS	Rectal Mucosa Donor 31	rectum
46	chr13:76445200-76445400	Active TSS	HUVEC	blood vessel
47	chr13:76445200-76446000	Active TSS	Fetal Muscle Leg	muscle
48	chr13:76445200-76447400	Weak transcription	HMEC	breast
49	chr13:76445200-76449800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
50	chr13:76445200-76450000	Weak transcription	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links