Variant report

Variant	rs13203009
Chromosome Location	chr6:4079250-4079251
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:9)
CpG islands
(count:0)
Chromatin interactive
region (count:0)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:9 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	E2F6	chr6:4078558-4079475	H1-hESC	embryonic stem cell:	n/a	n/a
2	MAX	chr6:4078644-4079326	H1-hESC	embryonic stem cell:	n/a	n/a
3	CTCF	chr6:4079100-4079250	HCM	heart:	n/a	n/a
4	E2F6	chr6:4078511-4079484	H1-hESC	embryonic stem cell:	n/a	n/a
5	MAX	chr6:4078667-4079409	H1-hESC	embryonic stem cell:	n/a	n/a
6	USF1	chr6:4078884-4079265	H1-hESC	embryonic stem cell:	n/a	n/a
7	GABPA	chr6:4079038-4079512	H1-hESC	embryonic stem cell:	n/a	n/a
8	POLR2A	chr6:4079174-4079257	H1-hESC	embryonic stem cell:	n/a	n/a
9	TBP	chr6:4078762-4079466	H1-hESC	embryonic stem cell:	n/a	n/a

No data

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ECI2-6	chr6:4079086-4079455	NONHSAT107292
2	lnc-C6orf201-4	chr6:4076360-4079955	NONHSAT107293

No data

Variant related genes	Relation type
C6orf201	TF binding region

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11751209	0.91[EUR][1000 genomes]
rs11753085	0.91[EUR][1000 genomes]
rs11759470	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13196680	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13197380	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13199593	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13200044	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13200786	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13204803	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13209091	0.89[EUR][1000 genomes]
rs13209389	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13209492	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13210029	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13210391	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13220866	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35304946	0.91[EUR][1000 genomes]
rs35686761	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs715165	0.81[AMR][1000 genomes]
rs71547255	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9328218	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532020	chr6:3417520-4140257	Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv1022968	chr6:3862744-4272502	Enhancers Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	nsv538106	chr6:3862744-4272502	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	nsv462615	chr6:4052383-4096678	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv600860	chr6:4052383-4096678	Strong transcription Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv1030104	chr6:4062894-4240269	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
7	esv3444323	chr6:4078453-4080526	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4066800-4079600	Weak transcription	NHLF	lung
2	chr6:4067000-4082400	Weak transcription	Brain Germinal Matrix	brain
3	chr6:4074400-4083000	Weak transcription	Pancreas	Pancrea
4	chr6:4078200-4084600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:4078800-4079400	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr6:4079000-4079400	Enhancers	Primary hematopoietic stem cells	blood
7	chr6:4079000-4079400	Enhancers	Right Atrium	heart
8	chr6:4079000-4082400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:4079200-4079400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr6:4079200-4079400	Bivalent/Poised TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr6:4079200-4079800	Enhancers	H1 Cell Line	embryonic stem cell
12	chr6:4079200-4080000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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