Variant report

Variant	rs4896028
Chromosome Location	chr6:134539179-134539180
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:134539060..134541566-chr6:134545416..134548701,3	MCF-7	breast:
2	chr6:134494576..134496856-chr6:134537015..134539253,2	K562	blood:

Variant related genes	Relation type
ENSG00000118515	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1009840	0.88[CHD][hapmap];0.94[JPT][hapmap];0.85[TSI][hapmap];0.90[ASN][1000 genomes]
rs13203172	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1621042	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17053580	0.82[CHB][hapmap];0.84[CHD][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs17063535	0.81[JPT][hapmap]
rs17063545	0.81[JPT][hapmap]
rs17063554	0.81[JPT][hapmap]
rs1743938	0.81[JPT][hapmap]
rs1743940	0.81[JPT][hapmap]
rs1743951	0.92[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs1743952	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1763501	0.87[ASN][1000 genomes]
rs1763502	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1763509	0.94[JPT][hapmap]
rs1763510	0.88[JPT][hapmap]
rs4895397	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4896025	0.82[ASN][1000 genomes]
rs4896026	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6937942	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs734738	0.83[JPT][hapmap]
rs744196	0.83[JPT][hapmap]
rs9493857	0.82[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv492292	chr6:134464255-135028540	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
2	nsv1026369	chr6:134468470-135122264	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
3	nsv538444	chr6:134468470-135122264	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
4	nsv1018677	chr6:134512542-134638259	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv538445	chr6:134512542-134638259	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1023931	chr6:134512542-134668702	Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv538446	chr6:134512542-134668702	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4896028	ANKRD23	trans	parietal	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:134532800-134551200	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr6:134535800-134539400	Enhancers	Primary B cells from peripheral blood	blood
3	chr6:134536400-134539600	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr6:134536400-134551600	Weak transcription	Primary T cells from cord blood	blood
5	chr6:134537400-134539400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:134537600-134539400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr6:134537600-134539400	Enhancers	NHDF-Ad	bronchial
8	chr6:134537800-134539400	Enhancers	NHLF	lung
9	chr6:134538000-134539200	Enhancers	Primary B cells from cord blood	blood
10	chr6:134538200-134545000	Weak transcription	Brain Anterior Caudate	brain
11	chr6:134538400-134545000	Weak transcription	Brain Hippocampus Middle	brain
12	chr6:134538600-134545800	Weak transcription	Ovary	ovary
13	chr6:134538800-134539200	Enhancers	Hela-S3	cervix
14	chr6:134538800-134539200	Enhancers	HepG2	liver
15	chr6:134538800-134539400	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr6:134538800-134539400	Enhancers	Monocytes-CD14+_RO01746	blood
17	chr6:134538800-134542000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr6:134538800-134544600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:134538800-134546000	Weak transcription	Pancreas	Pancrea
20	chr6:134539000-134539200	Enhancers	Primary T helper cells PMA-I stimulated	--

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