Variant report

Variant	rs11203078
Chromosome Location	chr10:91097554-91097555
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:91092210..91094053-chr10:91096573..91099425,2	K562	blood:
2	chr10:91087360..91089183-chr10:91097130..91099730,2	MCF-7	breast:
3	chr10:91093291..91095702-chr10:91097071..91099553,2	MCF-7	breast:
4	chr10:91097289..91100504-chr10:91101597..91104556,3	K562	blood:

Variant related genes	Relation type
ENSG00000119917	Chromatin interaction
ENSG00000107798	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10509571	0.95[CHB][hapmap]
rs10788641	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10887942	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10887945	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10887946	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10887947	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10887948	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11203064	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11203065	0.93[EUR][1000 genomes]
rs1141862	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12098435	0.80[YRI][hapmap]
rs12220939	0.95[EUR][1000 genomes]
rs191027	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2274878	0.95[CHB][hapmap]
rs2863759	1.00[YRI][hapmap]
rs303208	0.85[MEX][hapmap]
rs303210	0.82[CEU][hapmap];1.00[MEX][hapmap]
rs303215	0.82[CEU][hapmap]
rs303218	1.00[MEX][hapmap]
rs304411	1.00[MEX][hapmap]
rs304437	0.82[CEU][hapmap];1.00[MEX][hapmap]
rs304441	0.82[CEU][hapmap]
rs304493	0.84[GIH][hapmap]
rs304500	0.83[MEX][hapmap]
rs304501	0.94[CEU][hapmap];0.91[GIH][hapmap];0.85[MEX][hapmap];0.97[TSI][hapmap];0.88[EUR][1000 genomes]
rs304502	0.82[CEU][hapmap];0.94[MEX][hapmap]
rs304505	0.82[CEU][hapmap];1.00[MEX][hapmap]
rs304506	0.82[CEU][hapmap]
rs304508	0.94[CEU][hapmap];0.91[GIH][hapmap];0.84[MEX][hapmap];0.97[TSI][hapmap];0.88[EUR][1000 genomes]
rs305374	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4339948	0.95[CHB][hapmap]
rs4630205	0.95[CHB][hapmap]
rs4934472	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs627127	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.80[MEX][hapmap];0.81[TSI][hapmap];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs627496	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6586188	0.95[CHB][hapmap]
rs781501	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs812451	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv1041964	chr10:90861380-91378356	Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
4	nsv1040375	chr10:91022218-91153074	Enhancers Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	esv34085	chr10:91065949-91174175	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs11203078	IFIT5	cis	lymphoblastoid	seeQTL
rs11203078	IFIT5	cis	parietal	SCAN
rs11203078	IFIT5	cis	cerebellum	SCAN
rs11203078	C10orf116	cis	cerebellum	SCAN
rs11203078	IFIT1	cis	cerebellum	SCAN
rs11203078	IFIT5	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91088000-91099800	Weak transcription	Gastric	stomach
2	chr10:91090200-91107600	Weak transcription	Pancreas	Pancrea
3	chr10:91093400-91097800	Enhancers	Primary T helper cells PMA-I stimulated	--
4	chr10:91093400-91100200	Weak transcription	K562	blood
5	chr10:91093400-91100800	Weak transcription	Right Ventricle	heart
6	chr10:91093800-91099000	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr10:91093800-91106000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr10:91093800-91106400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr10:91094000-91098000	Weak transcription	HSMMtube	muscle
10	chr10:91094000-91098200	Weak transcription	HSMM	muscle
11	chr10:91094000-91098400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr10:91094000-91101000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr10:91094000-91102000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr10:91094000-91102200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr10:91094000-91103400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr10:91094000-91105400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr10:91094000-91110200	Weak transcription	Colonic Mucosa	Colon
18	chr10:91094000-91112000	Weak transcription	Esophagus	oesophagus
19	chr10:91094200-91097800	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr10:91094200-91098000	Weak transcription	Placenta	Placenta
21	chr10:91094200-91098000	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr10:91094200-91098000	Weak transcription	Stomach Smooth Muscle	stomach
23	chr10:91094200-91098200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
24	chr10:91094200-91098600	Weak transcription	Rectal Smooth Muscle	rectum
25	chr10:91094200-91099200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr10:91094200-91101400	Weak transcription	Osteobl	bone
27	chr10:91094200-91102000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr10:91094200-91102000	Weak transcription	NHDF-Ad	bronchial
29	chr10:91094200-91103400	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr10:91094200-91106800	Weak transcription	Fetal Kidney	kidney
31	chr10:91094200-91108400	Weak transcription	Stomach Mucosa	stomach
32	chr10:91094600-91100800	Weak transcription	Right Atrium	heart
33	chr10:91095000-91097800	Enhancers	Primary T cells from cord blood	blood
34	chr10:91095000-91098600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr10:91095200-91098200	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr10:91095200-91098200	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr10:91095200-91102000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr10:91095200-91110400	Weak transcription	Colon Smooth Muscle	Colon
39	chr10:91095400-91097600	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr10:91095400-91097800	Weak transcription	Small Intestine	intestine
41	chr10:91095600-91105600	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr10:91095800-91098000	Weak transcription	Psoas Muscle	Psoas
43	chr10:91096000-91097800	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr10:91096200-91100400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr10:91096200-91100400	Weak transcription	Thymus	Thymus
46	chr10:91096200-91100800	Strong transcription	Fetal Muscle Leg	muscle
47	chr10:91096200-91101200	Strong transcription	Monocytes-CD14+_RO01746	blood
48	chr10:91096400-91098200	Genic enhancers	Brain Inferior Temporal Lobe	brain
49	chr10:91096400-91100200	Strong transcription	Liver	Liver
50	chr10:91096600-91097600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood

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