Variant report

Variant	rs3806410
Chromosome Location	chr1:156337134-156337135
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:8)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:8 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	YY1	chr1:156337114-156337548	HepG2	liver:	n/a	n/a
2	HEY1	chr1:156336691-156338402	HepG2	liver:	n/a	n/a
3	POLR2A	chr1:156336907-156344214	HepG2	liver:	n/a	n/a
4	POLR2A	chr1:156337097-156337557	HepG2	liver:	n/a	n/a
5	POLR2A	chr1:156336691-156338385	HepG2	liver:	n/a	n/a
6	ZEB1	chr1:156336577-156339970	HepG2	liver:	n/a	chr1:156338920-156338927
7	HEY1	chr1:156337085-156337593	HepG2	liver:	n/a	n/a
8	POLR2A	chr1:156337091-156337539	HepG2	liver:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:156335306..156343282-chr1:156347773..156352892,8	MCF-7	breast:
2	chr1:156336150..156338110-chr1:156609529..156611837,2	K562	blood:
3	chr1:156304937..156307794-chr1:156336669..156339422,4	MCF-7	breast:
4	chr1:156305358..156309501-chr1:156336177..156340436,7	MCF-7	breast:

No data

Variant related genes	Relation type
RHBG	TF binding region
ENSG00000272068	Chromatin interaction
ENSG00000163467	Chromatin interaction
ENSG00000163468	Chromatin interaction
ENSG00000132692	Chromatin interaction
ENSG00000132677	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs11585330	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11586833	0.90[CEU][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11587027	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3790462	0.85[CEU][hapmap]
rs4641304	0.85[CEU][hapmap];0.90[CHB][hapmap];0.89[JPT][hapmap];0.94[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4661039	0.90[ASN][1000 genomes]
rs55745020	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6690897	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs954916	0.85[CEU][hapmap]

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	nsv916198	chr1:155804210-156403997	Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	428 gene(s)	inside rSNPs	diseases
2	nsv1011302	chr1:156081561-156532624	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	380 gene(s)	inside rSNPs	diseases
3	nsv915822	chr1:156226286-156651655	Strong transcription Weak transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	367 gene(s)	inside rSNPs	diseases
4	nsv872471	chr1:156287360-156356480	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
5	nsv470742	chr1:156335111-156354367	Genic enhancers Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3806410	RHBG	cis	multi-tissue	Pritchard

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:156335200-156337200	Enhancers	Fetal Intestine Large	intestine
2	chr1:156335600-156337800	Flanking Active TSS	HepG2	liver
3	chr1:156335800-156338600	Weak transcription	Esophagus	oesophagus
4	chr1:156335800-156338600	Enhancers	Fetal Intestine Small	intestine
5	chr1:156336000-156338000	Weak transcription	Pancreas	Pancrea
6	chr1:156336200-156338400	Weak transcription	Ovary	ovary
7	chr1:156336400-156337200	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr1:156336400-156339000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr1:156336600-156337200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr1:156336600-156337400	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr1:156336600-156338000	Enhancers	A549	lung
12	chr1:156336600-156338200	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr1:156336800-156337400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
14	chr1:156336800-156338200	Weak transcription	Liver	Liver
15	chr1:156336800-156338200	Enhancers	K562	blood
16	chr1:156336800-156339200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr1:156337000-156337200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr1:156337000-156337200	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
19	chr1:156337000-156337400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr1:156337000-156338000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr1:156337000-156338800	Enhancers	Placenta Amnion	Placenta Amnion

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links