Variant report

Variant	rs6854287
Chromosome Location	chr4:56202973-56202974
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Variant related genes	Relation type
ENSG00000128039	Chromatin interaction
ENSG00000134851	Chromatin interaction
ENSG00000249700	Chromatin interaction
ENSG00000203615	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10001607	0.84[ASN][1000 genomes]
rs1985606	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2063577	0.81[EUR][1000 genomes]
rs6813878	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6835891	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9790808	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv526344	chr4:55522488-56231119	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	esv3328582	chr4:56164136-56486156	Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6854287	TMEM165	cis	Nerve Tibial	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:56201600-56203400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr4:56201800-56203000	Enhancers	Muscle Satellite Cultured Cells	--
3	chr4:56201800-56203600	Flanking Active TSS	Dnd41	blood
4	chr4:56202000-56203200	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr4:56202200-56203600	Enhancers	Primary hematopoietic stem cells	blood
6	chr4:56202600-56203000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr4:56202600-56203000	Flanking Active TSS	K562	blood
8	chr4:56202800-56203800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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

what's new

Quick links