Variant report

Variant	rs6456738
Chromosome Location	chr6:26594033-26594034
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Variant related genes	Relation type
ABT1	TF binding region
ENSG00000182952	Chromatin interaction
ENSG00000265565	Chromatin interaction
ENSG00000184825	Chromatin interaction
ENSG00000124635	Chromatin interaction
ENSG00000158406	Chromatin interaction
ENSG00000197061	Chromatin interaction
ENSG00000197903	Chromatin interaction
ENSG00000196787	Chromatin interaction
ENSG00000256018	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs2451717	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2494708	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3800302	0.80[ASN][1000 genomes]
rs3807029	0.80[ASN][1000 genomes]
rs4591839	0.80[ASN][1000 genomes]
rs6911540	0.80[ASN][1000 genomes]
rs6915555	0.80[ASN][1000 genomes]
rs6919391	0.80[ASN][1000 genomes]
rs6931849	0.80[ASN][1000 genomes]
rs9379892	0.91[ASN][1000 genomes]
rs9379902	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 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

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs6456738	RP11-457M11.5	cis	Thyroid	GTEx
rs6456738	RP11-457M11.5	cis	Artery Tibial	GTEx
rs6456738	RP11-457M11.2	cis	Artery Aorta	GTEx
rs6456738	RP11-457M11.5	cis	Stomach	GTEx
rs6456738	RP11-457M11.5	cis	Esophagus Mucosa	GTEx
rs6456738	RP11-457M11.5	cis	lung	GTEx
rs6456738	RP11-457M11.5	cis	Whole Blood	GTEx

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26593000-26598000	Active TSS	H1 Cell Line	embryonic stem cell
2	chr6:26593000-26598400	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr6:26593200-26594600	Enhancers	HepG2	liver
4	chr6:26593600-26598400	Active TSS	HUES48 Cell Line	embryonic stem cell
5	chr6:26593800-26594600	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
6	chr6:26593800-26594800	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr6:26593800-26598000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
8	chr6:26593800-26598000	Active TSS	iPS-15b Cell Line	embryonic stem cell
9	chr6:26593800-26598000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr6:26593800-26598000	Active TSS	A549	lung
11	chr6:26593800-26598200	Active TSS	HUES6 Cell Line	embryonic stem cell
12	chr6:26593800-26598200	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr6:26593800-26598600	Active TSS	H9 Cell Line	embryonic stem cell
14	chr6:26594000-26594400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr6:26594000-26595600	Bivalent Enhancer	Monocytes-CD14+_RO01746	blood
16	chr6:26594000-26597200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr6:26594000-26598000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr6:26594000-26598000	Active TSS	K562	blood
19	chr6:26594000-26598200	Active TSS	HUES64 Cell Line	embryonic stem cell

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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