Variant report

Variant	rs6485709
Chromosome Location	chr11:46934309-46934310
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:46933026..46934959-chr11:46937593..46939848,2	K562	blood:
2	chr11:46933810..46936759-chr11:46937673..46939969,2	MCF-7	breast:
3	chr11:46932954..46934530-chr11:46938143..46940957,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000134569	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10742785	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10838631	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4752934	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[EUR][1000 genomes]
rs4752935	1.00[EUR][1000 genomes]
rs4752937	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs6485688	1.00[EUR][1000 genomes]
rs6485710	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7110643	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7123634	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7930852	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7930991	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs898603	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9794941	1.00[EUR][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6485709	IFIT3	trans	brain	seeQTL
rs6485709	CFB	trans	brain	seeQTL
rs6485709	S100A4	trans	brain	seeQTL

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46921600-46936000	Weak transcription	Pancreas	Pancrea
2	chr11:46921600-46936000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr11:46921800-46938400	Weak transcription	Gastric	stomach
4	chr11:46928600-46937200	Weak transcription	HepG2	liver
5	chr11:46929400-46934600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr11:46932800-46937000	Enhancers	Brain Cingulate Gyrus	brain
7	chr11:46933000-46934400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr11:46933600-46934600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr11:46933600-46935600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr11:46933600-46935600	Enhancers	Fetal Heart	heart
11	chr11:46933600-46939000	Enhancers	Spleen	Spleen
12	chr11:46933800-46934400	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr11:46933800-46934400	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr11:46933800-46934800	Enhancers	Duodenum Smooth Muscle	Duodenum
15	chr11:46933800-46934800	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
16	chr11:46933800-46935200	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr11:46933800-46935200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr11:46933800-46935400	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr11:46933800-46935800	Enhancers	Fetal Kidney	kidney
20	chr11:46933800-46936200	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
21	chr11:46933800-46937000	Enhancers	Brain Substantia Nigra	brain
22	chr11:46933800-46937000	Enhancers	Fetal Lung	lung
23	chr11:46933800-46937000	Enhancers	HSMMtube	muscle
24	chr11:46934000-46934400	Flanking Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr11:46934000-46934400	Enhancers	Primary hematopoietic stem cells	blood
26	chr11:46934000-46934400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr11:46934000-46934400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr11:46934000-46934400	Enhancers	Brain Angular Gyrus	brain
29	chr11:46934000-46934400	Enhancers	Colon Smooth Muscle	Colon
30	chr11:46934000-46934400	Bivalent Enhancer	Placenta	Placenta
31	chr11:46934000-46934400	Enhancers	A549	lung
32	chr11:46934000-46934400	Active TSS	Hela-S3	cervix
33	chr11:46934000-46934600	Active TSS	Colonic Mucosa	Colon
34	chr11:46934000-46934600	Active TSS	Pancreatic Islets	Pancreatic Islet
35	chr11:46934000-46934600	Enhancers	Placenta Amnion	Placenta Amnion
36	chr11:46934000-46934600	Active TSS	Rectal Mucosa Donor 31	rectum
37	chr11:46934000-46934600	Active TSS	Rectal Smooth Muscle	rectum
38	chr11:46934000-46934600	Flanking Active TSS	NH-A	brain
39	chr11:46934000-46934800	Flanking Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr11:46934000-46934800	Active TSS	HUES64 Cell Line	embryonic stem cell
41	chr11:46934000-46934800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr11:46934000-46934800	Flanking Active TSS	Brain Anterior Caudate	brain
43	chr11:46934000-46934800	Enhancers	Right Atrium	heart
44	chr11:46934000-46934800	Flanking Active TSS	Dnd41	blood
45	chr11:46934000-46934800	Flanking Active TSS	NHEK	skin
46	chr11:46934000-46935000	Flanking Active TSS	H1 Cell Line	embryonic stem cell
47	chr11:46934000-46935000	Active TSS	H9 Cell Line	embryonic stem cell
48	chr11:46934000-46935000	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr11:46934000-46935000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr11:46934000-46935200	Active TSS	ES-I3 Cell Line	embryonic stem cell

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