Variant report

Variant	rs1156457
Chromosome Location	chr6:27300580-27300581
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:27218055..27220276-chr6:27300325..27303096,3	K562	blood:
2	chr6:27298779..27303006-chr6:27440534..27442735,4	K562	blood:
3	chr6:27273015..27275740-chr6:27298464..27301159,2	K562	blood:
4	chr6:27299766..27302375-chr6:27444830..27446395,2	K562	blood:
5	chr6:27298898..27303175-chr6:27340830..27343404,5	K562	blood:
6	chr6:27287824..27293332-chr6:27295713..27302247,8	K562	blood:
7	chr6:27291413..27293040-chr6:27299829..27302713,2	MCF-7	breast:
8	chr6:27277495..27280431-chr6:27299498..27302391,2	K562	blood:
9	chr6:27263999..27267440-chr6:27299677..27302604,5	K562	blood:
10	chr6:27276791..27280576-chr6:27298923..27302888,5	K562	blood:
11	chr6:27299407..27301409-chr6:27341654..27343404,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000158553	Chromatin interaction
ENSG00000112812	Chromatin interaction
ENSG00000220758	Chromatin interaction
ENSG00000096654	Chromatin interaction
ENSG00000124613	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs2142706	0.89[CHB][hapmap];0.88[JPT][hapmap]
rs6456790	0.84[CHB][hapmap];0.81[JPT][hapmap]
rs9357035	0.90[EUR][1000 genomes]
rs9368504	0.92[EUR][1000 genomes]
rs9368505	0.91[EUR][1000 genomes]
rs9379979	0.99[ASN][1000 genomes]
rs980963	0.83[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	nsv948921	chr6:26556890-27443957	Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	472 gene(s)	inside rSNPs	diseases
2	nsv1017328	chr6:27177147-27369588	Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv883505	chr6:27210614-27300580	Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv883507	chr6:27279982-27318836	Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	esv2761047	chr6:27296775-27303927	Bivalent/Poised TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3'	Chromatin interactive region	5 gene(s)	inside rSNPs	n/a

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1156457	ZNF391	cis	cerebellum	SCAN
rs1156457	ZNF391	Cis_1M	lymphoblastoid	RTeQTL
rs1156457	ZSCAN23	cis	cerebellum	SCAN

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27299000-27300600	Enhancers	HepG2	liver
2	chr6:27300200-27303200	Active TSS	HUES6 Cell Line	embryonic stem cell
3	chr6:27300200-27303400	Active TSS	HUES48 Cell Line	embryonic stem cell
4	chr6:27300400-27300600	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr6:27300400-27300600	Bivalent/Poised TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr6:27300400-27300600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr6:27300400-27300600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr6:27300400-27300600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr6:27300400-27300600	Flanking Active TSS	K562	blood
10	chr6:27300400-27300800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr6:27300400-27300800	Enhancers	Primary T killer memory cells from peripheral blood	blood
12	chr6:27300400-27301000	Bivalent/Poised TSS	Primary hematopoietic stem cells	blood
13	chr6:27300400-27301600	Active TSS	H9 Cell Line	embryonic stem cell
14	chr6:27300400-27301600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:27300400-27301600	Active TSS	iPS-18 Cell Line	embryonic stem cell
16	chr6:27300400-27301800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr6:27300400-27301800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:27300400-27302000	Active TSS	GM12878-XiMat	blood
19	chr6:27300400-27302400	Active TSS	HUES64 Cell Line	embryonic stem cell
20	chr6:27300400-27303200	Active TSS	iPS-15b Cell Line	embryonic stem cell
21	chr6:27300400-27303200	Active TSS	iPS-20b Cell Line	embryonic stem cell
22	chr6:27300400-27303400	Active TSS	H1 Cell Line	embryonic stem cell
23	chr6:27300400-27303600	Active TSS	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links