Variant report

Variant	rs10838458
Chromosome Location	chr11:45393005-45393006
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:45392850..45393454-chr11:45792586..45793366,3	MCF-7	breast:
2	chr11:45392498..45393507-chr11:45792864..45793933,6	K562	blood:
3	chr11:45392639..45393338-chr11:45792530..45793432,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PRDM11-4	chr11:45392948-45394391	XLOC_009121
2	lnc-PRDM11-4	chr11:45392964-45393676	ENSG00000255267.2

Variant related genes	Relation type
ENSG00000205106	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11038415	0.94[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs11601710	0.94[CHB][hapmap];0.82[ASN][1000 genomes]
rs12365508	0.82[ASN][1000 genomes]
rs12418562	0.88[CHB][hapmap]
rs1530872	0.86[ASN][1000 genomes]
rs1868910	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1989168	0.84[ASN][1000 genomes]
rs2242043	0.94[CHB][hapmap];0.81[ASN][1000 genomes]
rs2242044	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34755629	0.82[ASN][1000 genomes]
rs35345891	0.87[ASN][1000 genomes]
rs35864917	0.86[ASN][1000 genomes]
rs6485623	0.86[ASN][1000 genomes]
rs7127704	0.82[ASN][1000 genomes]
rs7130052	0.87[CHB][hapmap];0.81[ASN][1000 genomes]
rs7925979	0.86[ASN][1000 genomes]
rs7930779	0.86[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	nsv530619	chr11:45294176-45553928	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv467869	chr11:45389225-45415035	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv554185	chr11:45389225-45415035	Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:45388400-45395800	Weak transcription	Liver	Liver
2	chr11:45392200-45393200	Enhancers	Brain Angular Gyrus	brain
3	chr11:45392400-45393400	Bivalent Enhancer	Primary B cells from peripheral blood	blood
4	chr11:45392400-45393400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
5	chr11:45392600-45393200	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
6	chr11:45392600-45393200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr11:45392600-45393200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
8	chr11:45392600-45393200	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
9	chr11:45392600-45393200	Bivalent Enhancer	Primary mononuclear cells fromperipheralblood	Blood
10	chr11:45392600-45393200	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr11:45392600-45393200	Bivalent Enhancer	Placenta	Placenta
12	chr11:45392600-45393200	Enhancers	Gastric	stomach
13	chr11:45392600-45393200	Enhancers	Pancreas	Pancrea
14	chr11:45392600-45393200	Enhancers	Spleen	Spleen
15	chr11:45392600-45393400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
16	chr11:45392600-45393400	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr11:45392600-45393400	Enhancers	Fetal Lung	lung
18	chr11:45392600-45393400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
19	chr11:45392600-45393400	Bivalent Enhancer	Fetal Muscle Leg	muscle
20	chr11:45392600-45393400	Enhancers	Lung	lung
21	chr11:45392600-45393600	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
22	chr11:45392600-45393600	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr11:45392600-45393800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr11:45392800-45393200	Bivalent Enhancer	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr11:45392800-45393200	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
26	chr11:45392800-45393200	Flanking Bivalent TSS/Enh	Primary T helper naive cells fromperipheralblood	blood
27	chr11:45392800-45393200	Enhancers	Primary T killer memory cells from peripheral blood	blood
28	chr11:45392800-45393200	Enhancers	Cortex derived primary cultured neurospheres	brain
29	chr11:45392800-45393200	Bivalent Enhancer	Adipose Nuclei	Adipose
30	chr11:45392800-45393200	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
31	chr11:45392800-45393200	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
32	chr11:45392800-45393200	Bivalent Enhancer	Stomach Mucosa	stomach
33	chr11:45392800-45393400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr11:45392800-45393400	Active TSS	HUES48 Cell Line	embryonic stem cell
35	chr11:45392800-45393400	Active TSS	HUES64 Cell Line	embryonic stem cell
36	chr11:45392800-45393400	Active TSS	iPS-15b Cell Line	embryonic stem cell
37	chr11:45392800-45393400	Enhancers	Primary T helper naive cells from peripheral blood	blood
38	chr11:45392800-45393400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
39	chr11:45392800-45393400	Enhancers	Ovary	ovary
40	chr11:45392800-45393400	Enhancers	Placenta Amnion	Placenta Amnion
41	chr11:45392800-45393600	Active TSS	ES-I3 Cell Line	embryonic stem cell
42	chr11:45393000-45393200	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
43	chr11:45393000-45393200	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr11:45393000-45393200	Active TSS	iPS-18 Cell Line	embryonic stem cell
45	chr11:45393000-45393200	Flanking Bivalent TSS/Enh	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr11:45393000-45393200	Flanking Bivalent TSS/Enh	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr11:45393000-45393200	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
48	chr11:45393000-45393200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
49	chr11:45393000-45393200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr11:45393000-45393200	Flanking Bivalent TSS/Enh	Primary Natural Killer cells fromperipheralblood	blood

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