Variant report

Variant	rs2151004
Chromosome Location	chr10:91034518-91034519
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10749602	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1960574	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.96[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2151006	1.00[CHB][hapmap];0.85[YRI][hapmap];0.84[AFR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7068816	1.00[ASW][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes]
rs7922193	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.82[LWK][hapmap];0.84[MEX][hapmap];0.87[MKK][hapmap];0.83[TSI][hapmap];0.85[YRI][hapmap];0.82[AFR][1000 genomes];0.89[EUR][1000 genomes];0.84[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	nsv947683	chr10:91020881-91035791	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	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

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs2151004	IFIT5	cis	lymphoblastoid	seeQTL
rs2151004	IFIT5	Cis_1M	lymphoblastoid	RTeQTL
rs2151004	MMRN2	cis	parietal	SCAN
rs2151004	IFIT5	cis	cerebellum	SCAN

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91020600-91035000	Weak transcription	Esophagus	oesophagus
2	chr10:91020800-91037600	Weak transcription	Aorta	Aorta
3	chr10:91023800-91035000	Weak transcription	Psoas Muscle	Psoas
4	chr10:91027200-91037400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr10:91027400-91036600	Weak transcription	Fetal Muscle Leg	muscle
6	chr10:91028000-91035000	Weak transcription	Brain Hippocampus Middle	brain
7	chr10:91028000-91037600	Weak transcription	Colon Smooth Muscle	Colon
8	chr10:91030000-91034800	Weak transcription	Brain Substantia Nigra	brain
9	chr10:91030400-91034800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr10:91030400-91034800	Weak transcription	Hela-S3	cervix
11	chr10:91030600-91037600	Weak transcription	Adipose Nuclei	Adipose
12	chr10:91031600-91035000	Weak transcription	Fetal Heart	heart
13	chr10:91031600-91037600	Weak transcription	Fetal Intestine Large	intestine
14	chr10:91033400-91037600	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr10:91033600-91037400	Weak transcription	Fetal Intestine Small	intestine
16	chr10:91034000-91035000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr10:91034000-91035000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr10:91034000-91036000	Enhancers	NHLF	lung
19	chr10:91034200-91035200	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr10:91034200-91035800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr10:91034200-91036000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr10:91034200-91036000	Enhancers	Osteobl	bone
23	chr10:91034200-91036200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr10:91034200-91037400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr10:91034200-91039200	Enhancers	Placenta Amnion	Placenta Amnion
26	chr10:91034400-91035200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr10:91034400-91035200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr10:91034400-91035200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr10:91034400-91035200	Enhancers	Brain Angular Gyrus	brain
30	chr10:91034400-91035200	Enhancers	Brain Inferior Temporal Lobe	brain
31	chr10:91034400-91035400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr10:91034400-91035600	Enhancers	A549	lung
33	chr10:91034400-91036000	Enhancers	Muscle Satellite Cultured Cells	--
34	chr10:91034400-91036000	Enhancers	Placenta	Placenta
35	chr10:91034400-91036200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr10:91034400-91039800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr10:91034400-91043400	Enhancers	NHDF-Ad	bronchial

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