Variant report

Variant	rs12799672
Chromosome Location	chr11:9448416-9448417
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:9447701..9450572-chr11:9481621..9483172,2	MCF-7	breast:
2	chr11:9447270..9449077-chr11:9449993..9451963,2	K562	blood:

Variant related genes	Relation type
ENSG00000201998	Chromatin interaction
ENSG00000268403	Chromatin interaction
ENSG00000166478	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1020621	0.87[ASN][1000 genomes]
rs1020622	0.87[ASN][1000 genomes]
rs10743107	0.87[ASN][1000 genomes]
rs10770028	0.85[ASN][1000 genomes]
rs10770029	0.85[ASN][1000 genomes]
rs10770032	0.87[ASN][1000 genomes]
rs10770033	0.87[ASN][1000 genomes]
rs10840228	0.86[ASN][1000 genomes]
rs10840234	0.83[ASN][1000 genomes]
rs10840235	0.87[ASN][1000 genomes]
rs10840236	0.89[ASN][1000 genomes]
rs10840237	0.88[ASN][1000 genomes]
rs10840238	0.87[ASN][1000 genomes]
rs11042328	0.86[ASN][1000 genomes]
rs11042329	0.86[ASN][1000 genomes]
rs11042348	0.90[ASN][1000 genomes]
rs11042349	0.84[ASN][1000 genomes]
rs11042350	0.87[ASN][1000 genomes]
rs11042353	0.87[ASN][1000 genomes]
rs11042355	0.87[ASN][1000 genomes]
rs11042356	0.87[ASN][1000 genomes]
rs11826606	0.81[ASN][1000 genomes]
rs12225755	0.87[ASN][1000 genomes]
rs12271897	0.87[ASN][1000 genomes]
rs12282176	0.87[ASN][1000 genomes]
rs12296039	0.83[ASN][1000 genomes]
rs12795344	0.85[ASN][1000 genomes]
rs12797567	0.90[ASN][1000 genomes]
rs12800802	0.87[ASN][1000 genomes]
rs2290423	0.83[ASN][1000 genomes]
rs35781320	0.84[ASN][1000 genomes]
rs41369549	0.87[ASN][1000 genomes]
rs4810	0.87[ASN][1000 genomes]
rs6486306	0.82[ASN][1000 genomes]
rs6486307	0.84[ASN][1000 genomes]
rs6486359	0.87[ASN][1000 genomes]
rs6486361	0.87[ASN][1000 genomes]
rs67548305	0.87[ASN][1000 genomes]
rs7104568	0.87[ASN][1000 genomes]
rs7114824	0.88[ASN][1000 genomes]
rs7122252	0.87[ASN][1000 genomes]
rs7395411	0.84[ASN][1000 genomes]
rs7944578	0.80[ASN][1000 genomes]
rs7949973	0.87[ASN][1000 genomes]
rs8785	0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916534	chr11:9188436-9516241	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv1055078	chr11:9252857-9538877	Strong transcription Active TSS Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	89 gene(s)	inside rSNPs	diseases
3	nsv427882	chr11:9431600-9626580	Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	77 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12799672	IPO7	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9407600-9464000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr11:9416000-9456000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr11:9419600-9471000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr11:9420600-9450400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr11:9421000-9471200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr11:9423000-9470400	Strong transcription	HUES64 Cell Line	embryonic stem cell
7	chr11:9424200-9470400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
8	chr11:9424800-9468600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
9	chr11:9424800-9469000	Strong transcription	HUES48 Cell Line	embryonic stem cell
10	chr11:9424800-9470600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr11:9425000-9468200	Strong transcription	Primary T helper cells fromperipheralblood	blood
12	chr11:9425000-9468400	Strong transcription	H1 Cell Line	embryonic stem cell
13	chr11:9425200-9467200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr11:9425800-9468000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr11:9426200-9471600	Strong transcription	Dnd41	blood
16	chr11:9426800-9468400	Strong transcription	Primary B cells from peripheral blood	blood
17	chr11:9426800-9470600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr11:9427200-9466800	Strong transcription	Primary T helper cells PMA-I stimulated	--
19	chr11:9427600-9471000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
20	chr11:9429800-9469000	Strong transcription	HUES6 Cell Line	embryonic stem cell
21	chr11:9430200-9459600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr11:9430200-9470200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr11:9430400-9457400	Strong transcription	A549	lung
24	chr11:9430400-9468200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr11:9431000-9453000	Strong transcription	Muscle Satellite Cultured Cells	--
26	chr11:9431600-9449200	Weak transcription	Fetal Heart	heart
27	chr11:9431800-9468800	Weak transcription	Stomach Mucosa	stomach
28	chr11:9432800-9450400	Weak transcription	Spleen	Spleen
29	chr11:9433000-9449600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr11:9433000-9464000	Weak transcription	Pancreatic Islets	Pancreatic Islet
31	chr11:9433200-9448600	Weak transcription	Brain Angular Gyrus	brain
32	chr11:9433200-9451400	Weak transcription	Aorta	Aorta
33	chr11:9434800-9470400	Strong transcription	Osteobl	bone
34	chr11:9435400-9466600	Strong transcription	Primary T cells fromperipheralblood	blood
35	chr11:9435400-9470400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr11:9436000-9450000	Strong transcription	Liver	Liver
37	chr11:9436800-9450600	Weak transcription	Esophagus	oesophagus
38	chr11:9437000-9450200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr11:9438200-9448800	Weak transcription	Colon Smooth Muscle	Colon
40	chr11:9439400-9468200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr11:9439600-9467600	Strong transcription	Placenta	Placenta
42	chr11:9439600-9468000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr11:9439600-9472000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
44	chr11:9439800-9467000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr11:9439800-9468200	Strong transcription	Duodenum Smooth Muscle	Duodenum
46	chr11:9439800-9470200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr11:9439800-9470600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr11:9440000-9452800	Strong transcription	Adipose Nuclei	Adipose
49	chr11:9440000-9465600	Strong transcription	NH-A	brain
50	chr11:9440000-9466200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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