Variant report

Variant	rs9556570
Chromosome Location	chr13:96999093-96999094
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1072563	0.81[ASN][1000 genomes]
rs12050064	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12560899	0.81[EUR][1000 genomes]
rs1475296	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16953068	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1925107	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1925115	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1925122	0.83[ASN][1000 genomes]
rs1927790	0.83[ASN][1000 genomes]
rs1927805	0.81[ASN][1000 genomes]
rs2149316	0.81[ASN][1000 genomes]
rs4771932	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4771935	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4771936	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61966875	0.84[ASN][1000 genomes]
rs6491285	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7320065	0.84[ASN][1000 genomes]
rs7323056	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7323705	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7324569	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7328493	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7337506	0.84[ASN][1000 genomes]
rs748457	0.83[ASN][1000 genomes]
rs7981845	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7981931	0.83[ASN][1000 genomes]
rs7985691	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7987636	0.81[ASN][1000 genomes]
rs927710	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9516649	0.81[ASN][1000 genomes]
rs9516651	0.81[ASN][1000 genomes]
rs9516653	0.81[ASN][1000 genomes]
rs9525169	0.81[ASN][1000 genomes]
rs9554333	0.83[ASN][1000 genomes]
rs9554345	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9556550	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9556551	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9556554	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9556555	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9556567	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9556574	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9556575	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9556576	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9562060	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050430	chr13:96508530-97020734	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv541883	chr13:96508530-97020734	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv869471	chr13:96622327-97223956	Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
4	nsv530390	chr13:96681439-97193029	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
5	nsv900936	chr13:96697209-97032483	Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	nsv530742	chr13:96917313-97627023	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
7	nsv900937	chr13:96976345-97275932	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
8	nsv562792	chr13:96976345-97563413	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9556570	CLDN10	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96995400-96999400	Weak transcription	Fetal Intestine Small	intestine
2	chr13:96995600-96999200	Weak transcription	Fetal Brain Female	brain
3	chr13:96997800-97001800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr13:96998800-96999800	Enhancers	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links