Variant report

Variant	rs11188337
Chromosome Location	chr10:97266574-97266575
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10509691	0.85[JPT][hapmap]
rs1075529	0.87[EUR][1000 genomes]
rs11188342	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12221125	0.99[ASN][1000 genomes]
rs12252701	0.95[JPT][hapmap]
rs1409712	0.87[CEU][hapmap];0.81[CHB][hapmap];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1409713	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1409714	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17110913	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1998911	0.81[CHD][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs4917693	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4917694	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4917696	0.95[JPT][hapmap]
rs4918941	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4918943	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59521949	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61869980	0.88[EUR][1000 genomes]
rs7071071	0.81[CHB][hapmap];0.87[CHD][hapmap]
rs7089353	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7092561	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7100779	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs752913	0.94[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7896439	1.00[ASN][1000 genomes]
rs7911804	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7923718	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs943347	0.83[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.90[TSI][hapmap];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9663482	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9783274	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[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	esv1808679	chr10:97266478-97316855	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11188337	AVPI1	cis	parietal	SCAN
rs11188337	STX12	trans	parietal	SCAN
rs11188337	DNTT	cis	cerebellum	SCAN

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97249800-97274000	Weak transcription	Spleen	Spleen
2	chr10:97251200-97268200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr10:97256800-97273200	Weak transcription	HSMM	muscle
4	chr10:97257600-97268000	Weak transcription	HSMMtube	muscle
5	chr10:97259200-97267200	Enhancers	Liver	Liver
6	chr10:97259400-97269600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
7	chr10:97260000-97269000	Enhancers	Left Ventricle	heart
8	chr10:97260000-97272800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr10:97260000-97278400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr10:97260400-97268200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr10:97260800-97268000	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr10:97260800-97269400	Enhancers	Skeletal Muscle Male	skeletal muscle
13	chr10:97260800-97272800	Weak transcription	Esophagus	oesophagus
14	chr10:97261000-97266600	Enhancers	Stomach Mucosa	stomach
15	chr10:97261000-97268000	Enhancers	Fetal Heart	heart
16	chr10:97261200-97268000	Enhancers	Rectal Smooth Muscle	rectum
17	chr10:97261200-97268600	Enhancers	Colon Smooth Muscle	Colon
18	chr10:97261800-97268400	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr10:97261800-97271200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr10:97262000-97271800	Weak transcription	HMEC	breast
21	chr10:97262400-97268200	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr10:97262400-97271000	Weak transcription	Lung	lung
23	chr10:97262400-97275000	Weak transcription	Fetal Muscle Trunk	muscle
24	chr10:97262400-97278400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
25	chr10:97262800-97268200	Weak transcription	Duodenum Mucosa	Duodenum
26	chr10:97263000-97268200	Weak transcription	Fetal Lung	lung
27	chr10:97263200-97268200	Weak transcription	Adipose Nuclei	Adipose
28	chr10:97264000-97266600	Enhancers	Cortex derived primary cultured neurospheres	brain
29	chr10:97264000-97267800	Weak transcription	Fetal Intestine Small	intestine
30	chr10:97264200-97268000	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr10:97264400-97267800	Weak transcription	Fetal Intestine Large	intestine
32	chr10:97265000-97266600	Enhancers	Brain Germinal Matrix	brain
33	chr10:97265000-97266800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr10:97265200-97268000	Weak transcription	Ovary	ovary
35	chr10:97265200-97268200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr10:97265200-97268200	Weak transcription	Brain Substantia Nigra	brain
37	chr10:97265200-97268200	Weak transcription	NH-A	brain
38	chr10:97265200-97268400	Enhancers	Breast Myoepithelial Primary Cells	Breast
39	chr10:97265200-97268400	Weak transcription	Fetal Muscle Leg	muscle
40	chr10:97265200-97268600	Weak transcription	Pancreas	Pancrea
41	chr10:97265200-97268800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr10:97265200-97271000	Weak transcription	Right Ventricle	heart
43	chr10:97265200-97272000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr10:97265400-97266600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr10:97265400-97267400	Enhancers	Stomach Smooth Muscle	stomach
46	chr10:97265400-97268200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr10:97265400-97268200	Weak transcription	H1 Cell Line	embryonic stem cell
48	chr10:97265400-97268200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr10:97265400-97270800	Weak transcription	Brain Inferior Temporal Lobe	brain
50	chr10:97265600-97267800	Weak transcription	Aorta	Aorta

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