Variant report

Variant	rs9561542
Chromosome Location	chr13:95001495-95001496
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DCT-11	chr13:95000748-95002750	NONHSAT034722

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12876549	0.90[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs9556363	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9556364	0.91[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs9556365	0.85[JPT][hapmap];0.84[AFR][1000 genomes]
rs9561538	0.83[AFR][1000 genomes]
rs9561539	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9634637	0.82[CEU][hapmap];0.87[YRI][hapmap];0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9634638	0.81[JPT][hapmap];0.82[AFR][1000 genomes]
rs9634639	0.84[AFR][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	nsv916640	chr13:94521959-95101443	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv533063	chr13:94560362-95101443	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	esv34004	chr13:94906537-95392644	Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv456077	chr13:94993032-95051560	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv562755	chr13:94993032-95051560	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:94990000-95003600	Weak transcription	Fetal Intestine Small	intestine
2	chr13:94995200-95004400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr13:94997000-95002800	Weak transcription	Aorta	Aorta
4	chr13:94997000-95003000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr13:94997000-95003200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr13:94997000-95034400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr13:94997200-95003000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr13:94997600-95003200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr13:94997800-95003000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr13:94997800-95003000	Weak transcription	Osteobl	bone
11	chr13:94998000-95003400	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr13:94998000-95003400	Weak transcription	NH-A	brain
13	chr13:94998000-95003800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr13:94998200-95003000	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr13:94998200-95003400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr13:94998200-95003400	Weak transcription	HSMM	muscle
17	chr13:94998200-95003600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr13:94998200-95003600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr13:94998200-95003800	Weak transcription	Adipose Nuclei	Adipose
20	chr13:94998400-95002000	Weak transcription	Ovary	ovary
21	chr13:94998400-95002400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr13:94998400-95003000	Weak transcription	NHDF-Ad	bronchial
23	chr13:94998400-95003200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr13:94998400-95003600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr13:94998400-95003600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr13:94998400-95003600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr13:94998400-95009000	Weak transcription	Fetal Stomach	stomach
28	chr13:94999000-95003600	Weak transcription	Fetal Thymus	thymus
29	chr13:95001000-95004600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr13:95001000-95007000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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