Variant report

Variant	rs16942325
Chromosome Location	chr17:20027063-20027064
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:20020458..20023220-chr17:20026359..20029161,2	K562	blood:
2	chr17:20026531..20029286-chr17:20029731..20031735,2	MCF-7	breast:
3	chr17:20025057..20027504-chr17:20071007..20074000,2	MCF-7	breast:
4	chr17:20025519..20027305-chr17:20058303..20059894,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000212186	Chromatin interaction
ENSG00000128487	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs11868429	0.91[CHB][hapmap]
rs12051550	0.90[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12051865	0.91[CHB][hapmap]
rs13339684	0.86[EUR][1000 genomes]
rs16959946	0.91[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16960554	0.84[CEU][hapmap]
rs16960660	0.87[EUR][1000 genomes]
rs16960678	0.87[EUR][1000 genomes]
rs16960717	0.91[CHB][hapmap];0.81[AMR][1000 genomes]
rs16960730	0.90[CHB][hapmap]
rs16964352	0.90[CEU][hapmap];0.91[CHB][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1971043	0.91[CHB][hapmap]
rs1971044	0.91[CHB][hapmap]
rs28550747	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28567541	0.87[EUR][1000 genomes]
rs28622601	0.87[EUR][1000 genomes]
rs28644386	0.86[EUR][1000 genomes]
rs3751979	0.91[CHB][hapmap]
rs3764436	0.90[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs5025290	0.90[CEU][hapmap];0.91[CHB][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56138907	0.87[EUR][1000 genomes]
rs6587061	0.91[CHB][hapmap]
rs6587218	0.83[ASN][1000 genomes]
rs7210439	0.87[EUR][1000 genomes]
rs7213349	0.85[ASN][1000 genomes]
rs7213816	0.91[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7215097	0.91[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7215432	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7225605	0.87[EUR][1000 genomes]
rs73981803	0.87[EUR][1000 genomes]
rs73981807	0.87[EUR][1000 genomes]
rs73984564	0.86[EUR][1000 genomes]
rs73984568	0.86[EUR][1000 genomes]
rs73984571	0.87[EUR][1000 genomes]
rs73984573	0.87[EUR][1000 genomes]
rs9889684	0.87[EUR][1000 genomes]
rs9895177	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9897161	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9897168	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9899514	0.91[CHB][hapmap]
rs9901357	0.89[EUR][1000 genomes]
rs9901484	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9902683	0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9908032	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9908418	0.90[CEU][hapmap];0.91[CHB][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9909156	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9911605	0.91[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9911879	0.87[EUR][1000 genomes]
rs9913018	0.91[CEU][hapmap];0.90[CHB][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9916729	0.87[EUR][1000 genomes]
rs9941362	0.91[CHB][hapmap]
rs9941376	0.91[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062853	chr17:19547912-20206601	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv907868	chr17:19768924-20217122	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv1060337	chr17:19828636-20204872	Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv543257	chr17:19828636-20204872	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv907871	chr17:19927699-20088492	Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv482438	chr17:19934376-20089005	Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv833395	chr17:19969959-20124084	Genic enhancers Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv1067100	chr17:20007480-20464520	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
9	nsv543260	chr17:20007480-20464520	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
10	nsv482830	chr17:20012748-20169153	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16942325	AKAP10	cis	Whole Blood	GTEx

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:19999000-20032800	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr17:20002200-20033400	Weak transcription	Primary hematopoietic stem cells	blood
3	chr17:20014600-20028800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr17:20016000-20028800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr17:20016400-20028600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr17:20024600-20028800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr17:20025400-20028800	Weak transcription	Adipose Nuclei	Adipose
8	chr17:20025400-20040400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr17:20025600-20027400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr17:20025600-20031000	Weak transcription	Left Ventricle	heart
11	chr17:20025600-20034600	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr17:20025800-20028800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr17:20025800-20029000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr17:20025800-20029200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr17:20025800-20029800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr17:20025800-20030200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr17:20025800-20031000	Weak transcription	Hela-S3	cervix
18	chr17:20025800-20037600	Weak transcription	Ovary	ovary
19	chr17:20025800-20044400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr17:20026000-20027400	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr17:20026000-20028800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr17:20026000-20031000	Weak transcription	Fetal Brain Female	brain
23	chr17:20026000-20031400	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr17:20026200-20028800	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr17:20026200-20040000	Weak transcription	Aorta	Aorta
26	chr17:20026200-20049800	Strong transcription	Monocytes-CD14+_RO01746	blood
27	chr17:20026600-20028600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr17:20026600-20031200	Weak transcription	Fetal Brain Male	brain
29	chr17:20026600-20033200	Strong transcription	Primary monocytes fromperipheralblood	blood
30	chr17:20026800-20028600	Weak transcription	Brain Cingulate Gyrus	brain
31	chr17:20026800-20028600	Weak transcription	Brain Hippocampus Middle	brain
32	chr17:20027000-20027400	Weak transcription	Brain Angular Gyrus	brain
33	chr17:20027000-20027800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
34	chr17:20027000-20028600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr17:20027000-20028800	Weak transcription	Brain Anterior Caudate	brain
36	chr17:20027000-20028800	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr17:20027000-20028800	Weak transcription	Brain Substantia Nigra	brain
38	chr17:20027000-20031000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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