Variant report

Variant	rs12443172
Chromosome Location	chr15:75119671-75119672
allele	C/G
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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:75110563..75112666-chr15:75119398..75122234,2	K562	blood:
2	chr15:75074126..75076948-chr15:75116903..75120530,4	MCF-7	breast:
3	chr15:75074148..75076667-chr15:75119485..75121788,2	K562	blood:
4	chr15:75117625..75119967-chr15:75247068..75249643,2	K562	blood:
5	chr15:75115096..75116793-chr15:75116936..75121281,3	K562	blood:
6	chr15:75115272..75120114-chr15:75130983..75135707,7	K562	blood:
7	chr15:75118890..75121057-chr15:75121173..75124170,2	K562	blood:
8	chr15:75096057..75099661-chr15:75118891..75121480,3	K562	blood:
9	chr15:75112798..75114870-chr15:75119173..75121348,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000140506	Chromatin interaction
ENSG00000178718	Chromatin interaction
ENSG00000103653	Chromatin interaction
ENSG00000198794	Chromatin interaction
ENSG00000261606	Chromatin interaction
ENSG00000140474	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12439525	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12439944	0.96[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs12441444	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12593251	0.88[ASN][1000 genomes]
rs12594158	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1531162	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1531163	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16972714	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2229730	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28397782	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28431073	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28577988	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28583379	0.92[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs2899827	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3743486	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3743487	0.84[EUR][1000 genomes]
rs3803568	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4886409	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4886620	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4886627	0.81[AMR][1000 genomes]
rs8039046	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9796628	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904380	chr15:74869438-75142761	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv833055	chr15:74988344-75166288	Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv520527	chr15:75108636-75122856	Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv904381	chr15:75108636-75242155	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75111400-75128000	Weak transcription	Gastric	stomach
2	chr15:75118600-75119800	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr15:75118800-75119800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
4	chr15:75119200-75119800	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood
5	chr15:75119200-75119800	Enhancers	Brain Anterior Caudate	brain
6	chr15:75119200-75123000	Weak transcription	Right Ventricle	heart
7	chr15:75119200-75123600	Weak transcription	Left Ventricle	heart
8	chr15:75119200-75125600	Weak transcription	Spleen	Spleen
9	chr15:75119400-75119800	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
10	chr15:75119400-75119800	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr15:75119400-75123600	Weak transcription	Right Atrium	heart
12	chr15:75119600-75124600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr15:75119600-75127800	Weak transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links