Variant report

Variant	rs17028328
Chromosome Location	chr4:99884658-99884659
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Variant related genes	Relation type
ENSG00000214886	Chromatin interaction
ENSG00000238449	Chromatin interaction
ENSG00000263923	Chromatin interaction
ENSG00000151247	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs17028323	1.00[AFR][1000 genomes]
rs17028338	1.00[ASW][hapmap];0.85[LWK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs17028347	0.89[AFR][1000 genomes]
rs2903158	0.89[YRI][hapmap]
rs6833875	1.00[YRI][hapmap]
rs6846054	0.80[AFR][1000 genomes]
rs72906974	0.80[AFR][1000 genomes]
rs72906977	0.80[AFR][1000 genomes]
rs72906984	0.80[AFR][1000 genomes]
rs72906987	0.80[AFR][1000 genomes]
rs7672509	0.82[ASW][hapmap]

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	nsv1009017	chr4:99669441-100406394	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17028328	MTTP	cis	lymphoblastoid	seeQTL

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:99883600-99885000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:99883600-99885200	Enhancers	HMEC	breast
3	chr4:99883800-99884800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr4:99884000-99884800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr4:99884000-99884800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr4:99884000-99885000	Enhancers	NHEK	skin
7	chr4:99884200-99885400	Enhancers	Esophagus	oesophagus
8	chr4:99884200-99885800	Enhancers	Breast Myoepithelial Primary Cells	Breast
9	chr4:99884400-99885000	Enhancers	Osteobl	bone
10	chr4:99884400-99885800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr4:99884400-99885800	Enhancers	K562	blood
12	chr4:99884600-99885600	Enhancers	NHDF-Ad	bronchial
13	chr4:99884600-99885800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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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