Variant report

Variant	rs10788642
Chromosome Location	chr10:91156353-91156354
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10509572	0.80[AFR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10887950	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10887953	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10887957	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10887959	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11203070	0.83[AFR][1000 genomes]
rs11203072	0.84[ASN][1000 genomes]
rs11203090	0.83[AFR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11203099	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11203105	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11203106	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11203109	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11203112	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11203115	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11203119	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11819073	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12248331	0.84[ASN][1000 genomes]
rs12255504	0.84[ASN][1000 genomes]
rs12356008	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12781453	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12781505	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1591051	0.82[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs17120001	0.83[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17120004	0.80[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17121248	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34234196	0.83[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs34712773	0.82[ASN][1000 genomes]
rs35359667	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35830608	0.83[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs3780878	0.84[ASN][1000 genomes]
rs6586182	0.82[ASN][1000 genomes]
rs6586183	0.82[ASN][1000 genomes]
rs7073534	0.82[ASN][1000 genomes]
rs7085361	0.82[ASN][1000 genomes]
rs7088579	0.86[AFR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7090346	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs71479013	0.85[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs7897619	0.82[ASN][1000 genomes]
rs7897873	0.82[ASN][1000 genomes]
rs7910389	0.82[ASN][1000 genomes]
rs7916812	0.84[ASN][1000 genomes]
rs884407	0.84[AFR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	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:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10788642	IFIT5	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91152800-91173600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr10:91152800-91174000	Weak transcription	Gastric	stomach
3	chr10:91153000-91164200	Weak transcription	Esophagus	oesophagus
4	chr10:91153200-91157400	Weak transcription	A549	lung
5	chr10:91153200-91157600	Weak transcription	HepG2	liver
6	chr10:91153200-91157800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr10:91153200-91162000	Weak transcription	HSMM	muscle
8	chr10:91153200-91163800	Weak transcription	Spleen	Spleen
9	chr10:91153200-91173600	Weak transcription	Brain Germinal Matrix	brain
10	chr10:91153400-91157400	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr10:91153400-91158000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr10:91153400-91162200	Weak transcription	Placenta	Placenta
13	chr10:91153400-91162200	Weak transcription	Lung	lung
14	chr10:91153400-91163400	Weak transcription	Duodenum Mucosa	Duodenum
15	chr10:91153400-91164000	Weak transcription	Pancreas	Pancrea
16	chr10:91153400-91172400	Weak transcription	Thymus	Thymus
17	chr10:91153600-91157600	Weak transcription	HSMMtube	muscle
18	chr10:91153600-91157800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr10:91153600-91162200	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr10:91153600-91162200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr10:91153600-91165400	Weak transcription	Fetal Thymus	thymus
22	chr10:91153600-91173600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr10:91154000-91157600	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr10:91154000-91162200	Weak transcription	Primary T cells from cord blood	blood
25	chr10:91154000-91162200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr10:91154000-91162200	Weak transcription	Fetal Stomach	stomach
27	chr10:91154000-91162400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr10:91154000-91164200	Weak transcription	Primary B cells from peripheral blood	blood
29	chr10:91154000-91166800	Weak transcription	Right Ventricle	heart
30	chr10:91154200-91157200	Weak transcription	Fetal Lung	lung
31	chr10:91154200-91157400	Weak transcription	Hela-S3	cervix
32	chr10:91154200-91157400	Weak transcription	NHLF	lung
33	chr10:91154200-91157600	Weak transcription	NHDF-Ad	bronchial
34	chr10:91154200-91157800	Weak transcription	Osteobl	bone
35	chr10:91154200-91161800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr10:91154200-91162000	Weak transcription	Primary hematopoietic stem cells	blood
37	chr10:91154200-91162200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr10:91154200-91162200	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr10:91154200-91162200	Weak transcription	Monocytes-CD14+_RO01746	blood
40	chr10:91154200-91164000	Weak transcription	Right Atrium	heart
41	chr10:91154200-91172400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr10:91154200-91173200	Weak transcription	Primary B cells from cord blood	blood
43	chr10:91154200-91173400	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr10:91154200-91173400	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr10:91154600-91162200	Weak transcription	Primary neutrophils fromperipheralblood	blood
46	chr10:91154600-91173000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr10:91154800-91156400	Enhancers	Primary T helper naive cells from peripheral blood	blood
48	chr10:91154800-91157600	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr10:91154800-91159400	Weak transcription	Primary monocytes fromperipheralblood	blood
50	chr10:91154800-91163400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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