Variant report

Variant	rs7913770
Chromosome Location	chr10:97219175-97219176
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs2148892	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2274491	0.80[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs4918930	0.84[ASN][1000 genomes]
rs4918937	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs533232	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs540746	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.93[TSI][hapmap];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs549062	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs554765	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs557941	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs564370	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7074761	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];0.81[MEX][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7094140	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7899065	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7913557	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs815313	0.87[EUR][1000 genomes];0.97[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	nsv1045002	chr10:97214418-97250630	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7913770	RPL13AP5	cis	parietal	SCAN
rs7913770	PPP1R3C	cis	parietal	SCAN

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97206000-97220000	Enhancers	Rectal Smooth Muscle	rectum
2	chr10:97209200-97219200	Weak transcription	Fetal Muscle Trunk	muscle
3	chr10:97210000-97219400	Enhancers	Colon Smooth Muscle	Colon
4	chr10:97213200-97234200	Weak transcription	Colonic Mucosa	Colon
5	chr10:97213800-97219800	Enhancers	Brain Anterior Caudate	brain
6	chr10:97213800-97219800	Enhancers	Duodenum Smooth Muscle	Duodenum
7	chr10:97215200-97219600	Enhancers	Fetal Brain Male	brain
8	chr10:97215400-97219800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
9	chr10:97215400-97219800	Enhancers	Fetal Brain Female	brain
10	chr10:97215600-97219800	Enhancers	Liver	Liver
11	chr10:97215800-97219200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
12	chr10:97216000-97223000	Weak transcription	Pancreas	Pancrea
13	chr10:97216000-97226800	Weak transcription	Duodenum Mucosa	Duodenum
14	chr10:97216000-97228200	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr10:97216200-97219400	Enhancers	Fetal Stomach	stomach
16	chr10:97216200-97220000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr10:97217000-97219800	Genic enhancers	Aorta	Aorta
18	chr10:97217200-97219600	Weak transcription	Esophagus	oesophagus
19	chr10:97217200-97219800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr10:97217400-97219200	Weak transcription	Stomach Mucosa	stomach
21	chr10:97217400-97219600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr10:97217600-97223000	Weak transcription	Placenta	Placenta
23	chr10:97217600-97223000	Weak transcription	Gastric	stomach
24	chr10:97217800-97219200	Weak transcription	Right Ventricle	heart
25	chr10:97218000-97219200	Enhancers	Stomach Smooth Muscle	stomach
26	chr10:97218000-97219200	Enhancers	HepG2	liver
27	chr10:97218000-97219600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr10:97218000-97229600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr10:97218200-97220000	Enhancers	HUES48 Cell Line	embryonic stem cell
30	chr10:97218200-97222000	Weak transcription	Pancreatic Islets	Pancreatic Islet
31	chr10:97218400-97220200	Enhancers	HUES64 Cell Line	embryonic stem cell
32	chr10:97218600-97220000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
33	chr10:97218800-97219800	Enhancers	Brain Substantia Nigra	brain
34	chr10:97218800-97220000	Enhancers	Brain Cingulate Gyrus	brain
35	chr10:97219000-97219200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
36	chr10:97219000-97219200	Enhancers	Brain Angular Gyrus	brain
37	chr10:97219000-97219200	Enhancers	Brain Inferior Temporal Lobe	brain
38	chr10:97219000-97219200	Enhancers	Lung	lung
39	chr10:97219000-97219400	Flanking Active TSS	Fetal Lung	lung
40	chr10:97219000-97219600	Enhancers	ES-I3 Cell Line	embryonic stem cell
41	chr10:97219000-97219600	Enhancers	Brain Germinal Matrix	brain
42	chr10:97219000-97219600	Enhancers	HSMMtube	muscle
43	chr10:97219000-97219800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr10:97219000-97219800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr10:97219000-97219800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr10:97219000-97219800	Enhancers	HUES6 Cell Line	embryonic stem cell
47	chr10:97219000-97219800	Enhancers	iPS-18 Cell Line	embryonic stem cell
48	chr10:97219000-97219800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr10:97219000-97219800	Enhancers	Brain Hippocampus Middle	brain
50	chr10:97219000-97219800	Flanking Active TSS	Fetal Heart	heart

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