Variant report

Variant	rs61897855
Chromosome Location	chr11:47231040-47231041
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:47230836..47232572-chr11:47289597..47292546,2	MCF-7	breast:
2	chr11:47226373..47228728-chr11:47230317..47232147,2	K562	blood:

Variant related genes	Relation type
ENSG00000266540	Chromatin interaction
ENSG00000110514	Chromatin interaction
ENSG00000025434	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs12573962	0.81[ASN][1000 genomes]
rs12574558	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12575296	0.81[ASN][1000 genomes]
rs12576461	0.81[ASN][1000 genomes]
rs12576690	0.81[ASN][1000 genomes]
rs12576751	0.81[ASN][1000 genomes]
rs12576831	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12576839	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12576935	0.84[ASN][1000 genomes]
rs12578030	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17197500	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs17197619	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17197710	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17790246	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs17790306	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs17790336	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17790342	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17790390	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17790420	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3736101	0.81[ASN][1000 genomes]
rs3816724	0.81[ASN][1000 genomes]
rs41301449	0.81[ASN][1000 genomes]
rs4572092	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4647713	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4647720	0.80[ASN][1000 genomes]
rs4647759	0.81[ASN][1000 genomes]
rs55968738	0.87[ASN][1000 genomes]
rs57012996	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57964319	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59689332	0.87[ASN][1000 genomes]
rs60041842	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60088916	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60174717	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60201196	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60335739	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61142746	0.87[ASN][1000 genomes]
rs61896051	0.81[ASN][1000 genomes]
rs61896053	0.81[ASN][1000 genomes]
rs61896054	0.81[ASN][1000 genomes]
rs61896120	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs61896121	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs61896122	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs61896124	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs61896125	0.93[ASN][1000 genomes]
rs61896126	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61896131	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs61896132	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61897776	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61897777	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61897782	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61897784	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61897786	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61897788	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61897791	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61897843	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61897851	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61897852	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61897853	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61897854	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61897856	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61897858	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61899284	0.87[ASN][1000 genomes]
rs61899285	0.87[ASN][1000 genomes]
rs61899293	0.87[ASN][1000 genomes]
rs61899294	0.87[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	nsv897323	chr11:47182926-47460306	Genic enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs61897855	PACSIN3	cis	Esophagus Mucosa	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:47226400-47235800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr11:47226600-47234600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr11:47227200-47231200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr11:47227200-47231200	Weak transcription	HMEC	breast
5	chr11:47227200-47231400	Weak transcription	NHEK	skin
6	chr11:47227200-47235600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr11:47231000-47231200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr11:47231000-47231400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr11:47231000-47232400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links