Variant report

Variant	rs10986062
Chromosome Location	chr9:101139020-101139021
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:101135309..101137051-chr9:101137273..101139774,2	K562	blood:
2	chr9:101136620..101139249-chr9:101156990..101158557,2	K562	blood:
3	chr9:101138177..101140761-chr9:101153735..101155417,2	K562	blood:
4	chr9:101125220..101129376-chr9:101135603..101141784,6	K562	blood:
5	chr9:101127682..101131370-chr9:101135028..101139404,5	K562	blood:
6	chr9:101076714..101079334-chr9:101138741..101140975,3	K562	blood:
7	chr9:101137064..101139135-chr9:101558434..101560859,2	K562	blood:
8	chr9:101138293..101140287-chr9:101143057..101145119,2	MCF-7	breast:
9	chr9:101135605..101137145-chr9:101138879..101140848,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000165138	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10986071	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs10986073	0.85[JPT][hapmap]
rs16915442	0.85[JPT][hapmap]
rs552989	0.87[CHD][hapmap]
rs661105	0.87[CHD][hapmap]
rs661532	0.87[CHD][hapmap]
rs7047634	0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430085	chr9:100928245-101339645	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv831664	chr9:101024862-101205637	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10986062	C9orf30	cis	cerebellum	SCAN
rs10986062	ZNF189	cis	cerebellum	SCAN

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101126600-101142600	Weak transcription	Brain Angular Gyrus	brain
2	chr9:101128200-101164200	Weak transcription	Brain Germinal Matrix	brain
3	chr9:101129000-101156000	Weak transcription	Fetal Brain Female	brain
4	chr9:101132800-101142800	Weak transcription	Right Atrium	heart
5	chr9:101133400-101139400	Enhancers	Pancreas	Pancrea
6	chr9:101133400-101142400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr9:101134200-101142600	Enhancers	Fetal Intestine Large	intestine
8	chr9:101134400-101142400	Enhancers	Fetal Intestine Small	intestine
9	chr9:101134600-101139400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr9:101134800-101140000	Weak transcription	Spleen	Spleen
11	chr9:101134800-101142400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr9:101134800-101143000	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr9:101135800-101140000	Weak transcription	Fetal Muscle Trunk	muscle
14	chr9:101136800-101144600	Enhancers	Primary B cells from peripheral blood	blood
15	chr9:101137000-101145000	Enhancers	Primary B cells from cord blood	blood
16	chr9:101137400-101142200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr9:101137400-101142200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr9:101137400-101142400	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr9:101137600-101142200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr9:101137600-101142200	Weak transcription	Fetal Heart	heart
21	chr9:101137600-101142400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr9:101137600-101142400	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr9:101137800-101139400	Enhancers	K562	blood
24	chr9:101137800-101140200	Weak transcription	Placenta	Placenta
25	chr9:101137800-101142200	Weak transcription	A549	lung
26	chr9:101137800-101142400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr9:101137800-101142400	Weak transcription	Duodenum Mucosa	Duodenum
28	chr9:101137800-101142400	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr9:101137800-101142400	Weak transcription	HMEC	breast
30	chr9:101137800-101142400	Weak transcription	HSMM	muscle
31	chr9:101137800-101142400	Weak transcription	HSMMtube	muscle
32	chr9:101138000-101140600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr9:101138000-101140600	Weak transcription	NHLF	lung
34	chr9:101138000-101142400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr9:101138000-101142400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr9:101138000-101142600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
37	chr9:101138200-101140400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr9:101138200-101140600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr9:101138200-101140600	Weak transcription	NH-A	brain
40	chr9:101138200-101142200	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr9:101138200-101142200	Weak transcription	HUVEC	blood vessel
42	chr9:101138200-101142400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr9:101138400-101140200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr9:101138400-101140200	Weak transcription	Osteobl	bone
45	chr9:101138400-101142400	Weak transcription	GM12878-XiMat	blood
46	chr9:101138400-101142600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr9:101138600-101140000	Weak transcription	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links