Variant report

Variant	rs10136662
Chromosome Location	chr14:64597186-64597187
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10047814	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10047815	0.88[CHD][hapmap];0.88[JPT][hapmap]
rs10047901	0.94[ASN][1000 genomes]
rs10136099	0.88[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.95[MKK][hapmap];0.96[TSI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10137370	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10137426	0.93[CEU][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10137665	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10142318	0.93[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10142480	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10151446	0.88[ASN][1000 genomes]
rs11158531	0.99[ASN][1000 genomes]
rs11158532	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11849394	0.87[ASW][hapmap];0.85[CEU][hapmap];0.80[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.88[YRI][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12147438	1.00[ASN][1000 genomes]
rs12587140	0.84[ASN][1000 genomes]
rs12587924	0.90[ASN][1000 genomes]
rs12590062	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12590378	0.85[CHB][hapmap]
rs2184288	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34994562	0.93[ASN][1000 genomes]
rs45472593	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57018718	0.94[ASN][1000 genomes]
rs7140578	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7158393	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7159213	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7160091	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7161361	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8003196	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8021831	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8022222	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8023139	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9323446	0.81[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv902019	chr14:64395569-64882380	Enhancers Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv456326	chr14:64420413-64754361	Strong transcription Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv564905	chr14:64420413-64754361	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv564906	chr14:64595673-64612858	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs10136662	FNTB	cis	parietal	SCAN
rs10136662	ZBTB1	cis	cerebellum	SCAN
rs10136662	FLJ43390	cis	parietal	SCAN
rs10136662	PPM1A	cis	parietal	SCAN
rs10136662	SNAPC1	cis	parietal	SCAN

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:64544000-64616200	Strong transcription	Primary T cells fromperipheralblood	blood
2	chr14:64567200-64616200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr14:64567400-64647200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr14:64577800-64616200	Strong transcription	Primary neutrophils fromperipheralblood	blood
5	chr14:64578200-64649000	Strong transcription	Primary T helper cells fromperipheralblood	blood
6	chr14:64578600-64649000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr14:64579600-64611000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr14:64580600-64600200	Weak transcription	Stomach Mucosa	stomach
9	chr14:64581400-64613400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr14:64581800-64650400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr14:64583400-64649000	Strong transcription	Rectal Mucosa Donor 29	rectum
12	chr14:64583600-64605400	Strong transcription	Primary T helper cells PMA-I stimulated	--
13	chr14:64583600-64611800	Strong transcription	Dnd41	blood
14	chr14:64583600-64638000	Strong transcription	Placenta	Placenta
15	chr14:64584400-64616000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr14:64584600-64607000	Weak transcription	HUVEC	blood vessel
17	chr14:64584600-64623000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr14:64584800-64605400	Strong transcription	Rectal Mucosa Donor 31	rectum
19	chr14:64585400-64613400	Weak transcription	HSMM	muscle
20	chr14:64585600-64607400	Strong transcription	Sigmoid Colon	Sigmoid Colon
21	chr14:64585600-64615600	Strong transcription	Duodenum Mucosa	Duodenum
22	chr14:64585800-64614400	Strong transcription	HUES64 Cell Line	embryonic stem cell
23	chr14:64586000-64649000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
24	chr14:64586200-64597400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr14:64586200-64602600	Strong transcription	HUES48 Cell Line	embryonic stem cell
26	chr14:64586400-64599600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
27	chr14:64586400-64631800	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr14:64586600-64603800	Weak transcription	HSMMtube	muscle
29	chr14:64586600-64614000	Weak transcription	Fetal Heart	heart
30	chr14:64587200-64601200	Strong transcription	Ovary	ovary
31	chr14:64587600-64601400	Strong transcription	Fetal Muscle Leg	muscle
32	chr14:64587800-64597600	Strong transcription	Thymus	Thymus
33	chr14:64587800-64598200	Strong transcription	Adipose Nuclei	Adipose
34	chr14:64587800-64601400	Strong transcription	Fetal Intestine Large	intestine
35	chr14:64588200-64601400	Strong transcription	Cortex derived primary cultured neurospheres	brain
36	chr14:64588800-64598200	Strong transcription	Brain Germinal Matrix	brain
37	chr14:64588800-64611600	Strong transcription	Primary T cells from cord blood	blood
38	chr14:64590200-64634000	Weak transcription	HepG2	liver
39	chr14:64590400-64608800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr14:64591000-64649000	Strong transcription	Liver	Liver
41	chr14:64591200-64601400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
42	chr14:64591600-64597200	Strong transcription	Skeletal Muscle Male	skeletal muscle
43	chr14:64591600-64602600	Strong transcription	GM12878-XiMat	blood
44	chr14:64591800-64598200	Strong transcription	HUES6 Cell Line	embryonic stem cell
45	chr14:64591800-64598200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr14:64591800-64599400	Strong transcription	Primary T killer memory cells from peripheral blood	blood
47	chr14:64591800-64601200	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr14:64591800-64601400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr14:64592000-64597200	Strong transcription	Fetal Brain Female	brain
50	chr14:64592000-64600400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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