Variant report

Variant	rs12317784
Chromosome Location	chr12:123603624-123603625
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr12:123603146..123605205-chr12:123632203..123634341,2	MCF-7	breast:
2	chr12:123602021..123604363-chr12:123605603..123608187,2	K562	blood:
3	chr12:123594098..123598804-chr12:123600213..123604964,5	K562	blood:
4	chr12:123598890..123601650-chr12:123601866..123605162,4	K562	blood:
5	chr12:123599616..123601650-chr12:123601866..123604392,2	K562	blood:
6	chr12:123603321..123605934-chr12:123608527..123611657,3	K562	blood:
7	chr12:123602721..123605164-chr12:123609329..123611695,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000090975	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11061612	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11834598	0.83[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.89[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12310205	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12313619	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs12318090	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6489253	0.93[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6650207	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7307833	0.83[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.89[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7953918	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3388790	chr12:123275902-123655103	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv517200	chr12:123312051-123654498	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv427924	chr12:123412172-123722059	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	78 gene(s)	inside rSNPs	diseases
4	nsv1042550	chr12:123532028-123659500	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	esv1825473	chr12:123582855-123822503	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
6	nsv870326	chr12:123585990-123719323	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12317784	SBNO1	cis	lymphoblastoid	seeQTL

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:123561600-123604000	Genic enhancers	Fetal Thymus	thymus
2	chr12:123590000-123603800	Enhancers	Left Ventricle	heart
3	chr12:123592800-123611200	Weak transcription	Primary hematopoietic stem cells	blood
4	chr12:123594600-123607200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr12:123594600-123634000	Weak transcription	Brain Germinal Matrix	brain
6	chr12:123595200-123610800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr12:123596600-123604800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr12:123597400-123608200	Enhancers	Primary B cells from peripheral blood	blood
9	chr12:123597800-123610800	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr12:123598000-123608400	Enhancers	Primary T helper cells fromperipheralblood	blood
11	chr12:123598200-123604800	Enhancers	Primary T cells from cord blood	blood
12	chr12:123598600-123606400	Weak transcription	HepG2	liver
13	chr12:123598800-123603800	Enhancers	Ovary	ovary
14	chr12:123598800-123605000	Enhancers	Primary T helper naive cells from peripheral blood	blood
15	chr12:123599000-123603800	Enhancers	Lung	lung
16	chr12:123599000-123604000	Enhancers	Placenta	Placenta
17	chr12:123599200-123624600	Weak transcription	Fetal Brain Female	brain
18	chr12:123600000-123604800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
19	chr12:123600000-123605000	Enhancers	Primary T helper cells PMA-I stimulated	--
20	chr12:123600000-123605200	Weak transcription	Fetal Intestine Large	intestine
21	chr12:123600000-123611200	Weak transcription	Aorta	Aorta
22	chr12:123600200-123605200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr12:123600600-123604400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr12:123600600-123604400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr12:123600600-123610600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr12:123600600-123610800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr12:123600600-123610800	Weak transcription	Fetal Intestine Small	intestine
28	chr12:123600600-123610800	Weak transcription	Stomach Mucosa	stomach
29	chr12:123600600-123611000	Weak transcription	Duodenum Mucosa	Duodenum
30	chr12:123600600-123611000	Weak transcription	Small Intestine	intestine
31	chr12:123600800-123603800	Enhancers	Rectal Smooth Muscle	rectum
32	chr12:123600800-123604400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr12:123600800-123604600	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr12:123600800-123604800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr12:123600800-123604800	Weak transcription	Fetal Muscle Trunk	muscle
36	chr12:123600800-123605000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
37	chr12:123600800-123605000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr12:123600800-123605000	Weak transcription	Hela-S3	cervix
39	chr12:123600800-123605200	Weak transcription	NHEK	skin
40	chr12:123600800-123605400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr12:123601000-123604800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr12:123601000-123604800	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr12:123601000-123605200	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr12:123601000-123610600	Weak transcription	Osteobl	bone
45	chr12:123601200-123603800	Genic enhancers	Thymus	Thymus
46	chr12:123601200-123605000	Weak transcription	HSMM	muscle
47	chr12:123601200-123605400	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr12:123601400-123604800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr12:123601400-123605000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr12:123601400-123605200	Weak transcription	HSMMtube	muscle

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