Variant report

Variant	rs62440396
Chromosome Location	chr7:16256156-16256157
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AC006035.2-1	chr7:16256009-16256194	ENSG00000229688.3
2	lnc-AC006035.2-1	chr7:16255958-16256194	ENSG00000229688.3

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1295129	0.80[AMR][1000 genomes]
rs1527208	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1527209	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1527220	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1527221	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17458603	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1918259	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1918260	0.84[AMR][1000 genomes]
rs1918266	0.98[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1918267	0.98[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2214626	0.84[AMR][1000 genomes]
rs4721485	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56005627	0.83[AMR][1000 genomes]
rs56024841	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs56161298	0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs56279207	0.84[AMR][1000 genomes]
rs61282805	0.81[EUR][1000 genomes]
rs62440394	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62440406	0.85[EUR][1000 genomes]
rs62440407	0.81[AMR][1000 genomes]
rs62440451	0.85[AMR][1000 genomes]
rs6956986	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6961874	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6974124	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7778438	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7782485	0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016642	chr7:15884061-16799788	Genic enhancers Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv949555	chr7:16078412-16279290	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1035015	chr7:16144928-16273061	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	esv1847175	chr7:16155335-16272661	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv948950	chr7:16168925-16395434	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv887738	chr7:16211553-16284139	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv887739	chr7:16216494-16284139	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv887740	chr7:16216494-16286261	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv887741	chr7:16216494-16300179	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
10	nsv1030704	chr7:16236162-16271197	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	esv2757214	chr7:16236162-16334228	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
12	esv2759514	chr7:16236162-16527390	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
13	esv34298	chr7:16251754-16324185	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
14	nsv1022388	chr7:16251992-16431864	Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
15	nsv887742	chr7:16254553-16284139	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:16241400-16256400	Weak transcription	Left Ventricle	heart
2	chr7:16250200-16275800	Weak transcription	Pancreas	Pancrea
3	chr7:16255200-16256400	Active TSS	ES-I3 Cell Line	embryonic stem cell
4	chr7:16255800-16256200	Enhancers	HUES6 Cell Line	embryonic stem cell
5	chr7:16256000-16256200	Active TSS	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links