Variant report

Variant	rs10810105
Chromosome Location	chr9:14191522-14191523
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10756531	1.00[YRI][hapmap]
rs10810107	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10810108	0.85[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10810109	0.88[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10961411	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.84[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.80[MKK][hapmap];0.95[TSI][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10961412	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.94[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12156460	0.87[CEU][hapmap];1.00[YRI][hapmap]
rs4237133	1.00[YRI][hapmap]
rs4375095	0.88[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59157653	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7863447	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033764	chr9:13764918-14226168	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv892593	chr9:13948798-14233159	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1023303	chr9:14025605-14286269	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv540069	chr9:14025605-14286269	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv1029491	chr9:14033607-14942373	Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	nsv429998	chr9:14043516-14214688	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
7	nsv892596	chr9:14145487-14208724	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv892597	chr9:14163383-14233159	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv915804	chr9:14182608-14903050	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10810105	NAPG	trans	cerebellum	SCAN
rs10810105	IFIT1B	trans	parietal	SCAN

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:14123800-14198600	Weak transcription	Gastric	stomach
2	chr9:14177200-14203400	Weak transcription	Fetal Muscle Trunk	muscle
3	chr9:14181000-14192400	Weak transcription	Pancreas	Pancrea
4	chr9:14182000-14192400	Weak transcription	Right Atrium	heart
5	chr9:14182000-14197000	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr9:14182000-14198600	Weak transcription	Ovary	ovary
7	chr9:14182400-14193600	Weak transcription	Brain Hippocampus Middle	brain
8	chr9:14182800-14198200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr9:14183400-14192400	Weak transcription	Left Ventricle	heart
10	chr9:14183400-14192400	Weak transcription	Psoas Muscle	Psoas
11	chr9:14183400-14192600	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr9:14183800-14198400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr9:14186000-14198600	Weak transcription	Lung	lung
14	chr9:14186800-14198600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr9:14187200-14192400	Weak transcription	Right Ventricle	heart
16	chr9:14187800-14195600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr9:14187800-14198400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr9:14188000-14192400	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr9:14188200-14192400	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr9:14188200-14193800	Weak transcription	Rectal Smooth Muscle	rectum
21	chr9:14188200-14193800	Weak transcription	HMEC	breast
22	chr9:14188200-14198600	Weak transcription	Fetal Stomach	stomach
23	chr9:14188200-14199000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr9:14189000-14198600	Weak transcription	Aorta	Aorta
25	chr9:14189200-14195000	Weak transcription	Adipose Nuclei	Adipose
26	chr9:14189200-14196600	Weak transcription	Liver	Liver
27	chr9:14189400-14191600	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr9:14189400-14191800	Weak transcription	Fetal Heart	heart
29	chr9:14189400-14192400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr9:14189400-14194000	Weak transcription	Fetal Brain Male	brain
31	chr9:14189400-14195000	Weak transcription	Brain Anterior Caudate	brain
32	chr9:14189600-14193200	Enhancers	HUVEC	blood vessel
33	chr9:14189800-14192400	Weak transcription	Fetal Muscle Leg	muscle
34	chr9:14189800-14193000	Weak transcription	Colon Smooth Muscle	Colon
35	chr9:14189800-14193800	Weak transcription	Fetal Brain Female	brain
36	chr9:14189800-14198600	Weak transcription	Small Intestine	intestine
37	chr9:14190400-14198000	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr9:14190600-14191600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr9:14190600-14198800	Weak transcription	A549	lung
40	chr9:14191000-14197600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr9:14191200-14191800	Weak transcription	Brain Germinal Matrix	brain
42	chr9:14191200-14192600	Weak transcription	Fetal Lung	lung
43	chr9:14191400-14197600	Enhancers	Breast Myoepithelial Primary Cells	Breast

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