Variant report

Variant	rs17086124
Chromosome Location	chr9:85899677-85899678
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10512138	0.94[CEU][hapmap];0.81[CHB][hapmap];0.86[CHD][hapmap];0.90[JPT][hapmap];0.93[MEX][hapmap];0.96[TSI][hapmap];0.86[EUR][1000 genomes]
rs10867979	0.83[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs11139998	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11140001	0.91[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11140009	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs11140010	0.85[CHB][hapmap];0.87[CHD][hapmap];0.82[ASN][1000 genomes]
rs12003055	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12005318	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12336693	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12339855	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs12345712	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12376739	0.81[CHB][hapmap];0.86[CHD][hapmap];0.90[JPT][hapmap]
rs1323778	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1323779	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1323782	0.94[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.95[TSI][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1323785	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13298532	0.81[JPT][hapmap]
rs4395967	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs55707933	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56128787	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58579431	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6559718	1.00[CHB][hapmap];0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs7034332	0.94[CEU][hapmap];0.81[CHB][hapmap];1.00[CHD][hapmap];0.81[JPT][hapmap];0.92[TSI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7034639	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7034898	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7856762	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv1046491	chr9:85861492-86063992	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv6586	chr9:85869828-85914812	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17086124	RASEF	cis	parietal	SCAN
rs17086124	C9orf153	cis	cerebellum	SCAN

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85856200-85910600	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr9:85866200-85913000	Weak transcription	Aorta	Aorta
3	chr9:85884200-85912400	Weak transcription	HepG2	liver
4	chr9:85890400-85902400	Weak transcription	Left Ventricle	heart
5	chr9:85895000-85912800	Weak transcription	Fetal Brain Female	brain
6	chr9:85896000-85913600	Weak transcription	Psoas Muscle	Psoas
7	chr9:85896000-85919800	Weak transcription	Lung	lung
8	chr9:85896400-85912600	Weak transcription	Gastric	stomach
9	chr9:85896400-85913400	Weak transcription	Brain Germinal Matrix	brain
10	chr9:85896600-85913000	Weak transcription	Primary monocytes fromperipheralblood	blood
11	chr9:85896800-85900000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr9:85896800-85905400	Weak transcription	Stomach Smooth Muscle	stomach
13	chr9:85896800-85906200	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr9:85896800-85910800	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr9:85896800-85922800	Weak transcription	Spleen	Spleen
16	chr9:85897000-85903800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr9:85897000-85905400	Weak transcription	Fetal Stomach	stomach
18	chr9:85897000-85912600	Weak transcription	Adipose Nuclei	Adipose
19	chr9:85897000-85912600	Weak transcription	Ovary	ovary
20	chr9:85897000-85912800	Weak transcription	Right Ventricle	heart
21	chr9:85897200-85900200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr9:85897200-85912000	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr9:85897200-85913000	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr9:85897200-85919200	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr9:85897200-85922000	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr9:85897400-85914800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr9:85897800-85900000	Weak transcription	HSMMtube	muscle
28	chr9:85897800-85901600	Weak transcription	NHDF-Ad	bronchial
29	chr9:85898000-85900000	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr9:85898600-85902400	Enhancers	Fetal Muscle Leg	muscle
31	chr9:85898800-85901600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr9:85899400-85900200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr9:85899600-85901000	Enhancers	Fetal Heart	heart
34	chr9:85899600-85901800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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