Variant report

Variant	rs1891274
Chromosome Location	chr10:93442365-93442366
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:93439340..93443358-chr10:93444027..93446342,3	MCF-7	breast:

Extended variants
information (count: 48 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10732773	0.87[EUR][1000 genomes]
rs10786008	0.85[EUR][1000 genomes]
rs1080495	0.87[ASN][1000 genomes]
rs10881934	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs10881935	0.80[CEU][hapmap];0.85[EUR][1000 genomes]
rs10881939	0.85[EUR][1000 genomes]
rs10881940	0.85[EUR][1000 genomes]
rs10881941	0.81[EUR][1000 genomes]
rs10881942	0.84[EUR][1000 genomes]
rs10881943	0.85[EUR][1000 genomes]
rs10881945	0.87[EUR][1000 genomes]
rs11186640	0.85[EUR][1000 genomes]
rs1891271	0.87[EUR][1000 genomes]
rs1891272	0.87[EUR][1000 genomes]
rs1891273	0.87[ASN][1000 genomes]
rs1970506	0.84[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs2000177	0.85[EUR][1000 genomes]
rs2000178	0.85[EUR][1000 genomes]
rs2027486	0.85[EUR][1000 genomes]
rs2421621	0.85[EUR][1000 genomes]
rs2421623	0.85[EUR][1000 genomes]
rs2421624	0.87[EUR][1000 genomes]
rs2421625	0.87[EUR][1000 genomes]
rs2421626	0.87[EUR][1000 genomes]
rs2421627	0.87[EUR][1000 genomes]
rs2421628	0.87[EUR][1000 genomes]
rs2421629	0.87[EUR][1000 genomes]
rs2421737	0.87[ASN][1000 genomes]
rs4439432	0.83[EUR][1000 genomes]
rs4933216	0.87[EUR][1000 genomes]
rs4933681	0.85[EUR][1000 genomes]
rs4933682	0.82[EUR][1000 genomes]
rs4933683	0.85[EUR][1000 genomes]
rs4933684	0.82[EUR][1000 genomes]
rs4933687	0.85[EUR][1000 genomes]
rs4933690	0.87[EUR][1000 genomes]
rs4933691	0.87[EUR][1000 genomes]
rs4933692	0.87[EUR][1000 genomes]
rs6583782	0.87[EUR][1000 genomes]
rs7071844	0.85[EUR][1000 genomes]
rs7084386	0.81[EUR][1000 genomes]
rs7087959	0.87[EUR][1000 genomes]
rs7088831	0.85[EUR][1000 genomes]
rs7897524	0.85[EUR][1000 genomes]
rs7900799	0.80[EUR][1000 genomes]
rs7900863	0.87[EUR][1000 genomes]
rs7908980	0.87[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895892	chr10:93432632-93470167	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs1891274	NLF2	trans	lymphoblastoid	RTeQTL
rs1891274	TNKS2-AS1	cis	Esophagus Muscularis	GTEx
rs1891274	TNKS2-AS1	cis	Skin Sun Exposed Lower leg	GTEx
rs1891274	TNKS2-AS1	cis	Esophagus Mucosa	GTEx
rs1891274	TNKS2-AS1	cis	Heart Left Ventricle	GTEx
rs1891274	TNKS2-AS1	cis	Muscle Skeletal	GTEx

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93424800-93449800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr10:93427000-93443400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr10:93427600-93448800	Weak transcription	Liver	Liver
4	chr10:93432400-93442800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr10:93439200-93444600	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr10:93439400-93449600	Weak transcription	Aorta	Aorta
7	chr10:93440000-93442600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr10:93440000-93443400	Enhancers	Muscle Satellite Cultured Cells	--
9	chr10:93440000-93443400	Enhancers	NHEK	skin
10	chr10:93440000-93443600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr10:93440000-93444400	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr10:93440600-93442400	Enhancers	Skeletal Muscle Male	skeletal muscle
13	chr10:93440600-93443600	Enhancers	NHDF-Ad	bronchial
14	chr10:93440600-93444600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr10:93440600-93445000	Enhancers	HMEC	breast
16	chr10:93441000-93442600	Enhancers	Fetal Heart	heart
17	chr10:93441200-93442400	Enhancers	Left Ventricle	heart
18	chr10:93441200-93443400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr10:93441200-93445000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr10:93441600-93442400	Enhancers	Brain Anterior Caudate	brain
21	chr10:93441600-93443400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr10:93441600-93449800	Weak transcription	HSMMtube	muscle
23	chr10:93441800-93442600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
24	chr10:93441800-93442800	Weak transcription	NHLF	lung
25	chr10:93441800-93443400	Weak transcription	NH-A	brain
26	chr10:93441800-93443600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr10:93442000-93442400	Enhancers	HUES64 Cell Line	embryonic stem cell
28	chr10:93442000-93443000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr10:93442000-93443200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr10:93442000-93443200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr10:93442000-93443200	Weak transcription	Osteobl	bone
32	chr10:93442000-93443400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr10:93442000-93443400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr10:93442000-93443400	Weak transcription	HSMM	muscle
35	chr10:93442000-93443600	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr10:93442000-93443600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr10:93442000-93443600	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr10:93442000-93443600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
39	chr10:93442000-93443600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr10:93442000-93444400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr10:93442000-93449800	Weak transcription	Fetal Brain Male	brain
42	chr10:93442200-93443200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr10:93442200-93443200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr10:93442200-93443400	Weak transcription	Brain Angular Gyrus	brain
45	chr10:93442200-93443600	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr10:93442200-93443800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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