Variant report

Variant	rs13410483
Chromosome Location	chr2:40600833-40600834
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TMEM178-5	chr2:40599056-40601579	NONHSAT070280

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10176856	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10177254	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs13405660	0.88[ASN][1000 genomes]
rs13417463	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs13424864	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs17025901	1.00[AMR][1000 genomes]
rs28544231	1.00[AMR][1000 genomes]
rs41322444	0.92[AMR][1000 genomes]
rs55661117	0.94[ASN][1000 genomes]
rs58215370	0.82[ASN][1000 genomes]
rs72941904	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72941907	0.88[ASN][1000 genomes]
rs72941908	0.92[AMR][1000 genomes]
rs73926638	0.94[ASN][1000 genomes]
rs73928973	0.82[ASN][1000 genomes]
rs73928975	0.82[ASN][1000 genomes]
rs7581755	1.00[AMR][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	nsv529606	chr2:40206280-40896881	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv873911	chr2:40423454-41161464	ZNF genes & repeats Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	esv2757794	chr2:40547947-40733776	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	esv2759044	chr2:40547947-40733776	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv873915	chr2:40573350-40615520	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:40592400-40605200	Weak transcription	Right Atrium	heart
2	chr2:40592800-40606600	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr2:40593400-40607000	Weak transcription	Dnd41	blood
4	chr2:40594200-40605200	Weak transcription	Fetal Brain Female	brain
5	chr2:40595000-40611000	Weak transcription	Right Ventricle	heart
6	chr2:40596000-40601600	Enhancers	Colon Smooth Muscle	Colon
7	chr2:40596400-40601200	Enhancers	Rectal Smooth Muscle	rectum
8	chr2:40596400-40601400	Enhancers	Osteobl	bone
9	chr2:40597000-40601200	Enhancers	HSMMtube	muscle
10	chr2:40597000-40603400	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr2:40597200-40601400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
12	chr2:40598000-40601000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr2:40598200-40601200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr2:40598400-40601000	Enhancers	Fetal Stomach	stomach
15	chr2:40598400-40606600	Weak transcription	Aorta	Aorta
16	chr2:40598600-40601000	Enhancers	Adipose Nuclei	Adipose
17	chr2:40598600-40601200	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr2:40598800-40601000	Enhancers	Muscle Satellite Cultured Cells	--
19	chr2:40599000-40601000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr2:40599200-40608200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr2:40599200-40609000	Weak transcription	Left Ventricle	heart
22	chr2:40600000-40601800	Weak transcription	Fetal Kidney	kidney
23	chr2:40600000-40605200	Weak transcription	Primary neutrophils fromperipheralblood	blood
24	chr2:40600400-40601200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr2:40600400-40606600	Weak transcription	HSMM	muscle
26	chr2:40600600-40602200	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr2:40600800-40601200	Flanking Active TSS	Fetal Heart	heart
28	chr2:40600800-40601200	Enhancers	Skeletal Muscle Male	skeletal muscle
29	chr2:40600800-40601400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr2:40600800-40601400	Enhancers	Psoas Muscle	Psoas
31	chr2:40600800-40609000	Weak transcription	NHDF-Ad	bronchial

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