Variant report

Variant	rs6793607
Chromosome Location	chr3:140226452-140226453
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NMNAT3-5	chr3:140225494-140227631	ENSG00000250433.1
2	lnc-NMNAT3-5	chr3:140225494-140227631	NR_108084

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs12634859	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.96[TSI][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12636522	0.94[CEU][hapmap]
rs1427777	0.80[ASN][1000 genomes]
rs187031	0.80[CHD][hapmap];0.83[MKK][hapmap]
rs2081801	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs349502	0.88[CHD][hapmap]
rs349503	0.97[LWK][hapmap];0.83[MKK][hapmap]
rs55776797	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs66565597	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67145238	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757891	chr3:139925764-140524730	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	esv2759181	chr3:139925764-140524730	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv527831	chr3:139932966-140533823	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	esv34489	chr3:140009020-140469302	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv2757012	chr3:140009220-140460228	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv591863	chr3:140126067-140274442	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140216400-140227600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:140218000-140227800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:140220200-140228000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:140224200-140228200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr3:140224400-140228000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr3:140224400-140228200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:140224400-140247200	Weak transcription	Ovary	ovary
8	chr3:140224800-140228000	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr3:140225000-140228000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr3:140225000-140236800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr3:140225200-140227600	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr3:140225200-140227600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr3:140225400-140227400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr3:140225400-140228200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr3:140225600-140227200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr3:140225600-140227400	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr3:140225600-140227400	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr3:140225600-140227600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr3:140226200-140227000	Weak transcription	HSMMtube	muscle
20	chr3:140226400-140227200	Enhancers	Adipose Nuclei	Adipose

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