Variant report

Variant	rs7925771
Chromosome Location	chr11:45357533-45357534
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PRDM11-8	chr11:45357482-45357714	ucscGeneNc_uc001myr_1

Extended variants
information (count: 33 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10742748	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10742749	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10742750	0.86[ASN][1000 genomes]
rs10769138	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10838446	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11038390	0.85[EUR][1000 genomes]
rs11530155	0.85[EUR][1000 genomes]
rs34801223	0.86[EUR][1000 genomes]
rs4755962	0.81[EUR][1000 genomes]
rs4755965	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4755966	0.81[EUR][1000 genomes]
rs4755967	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4755969	0.82[EUR][1000 genomes]
rs4755970	0.82[EUR][1000 genomes]
rs4755975	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6416133	0.81[EUR][1000 genomes]
rs6485613	0.81[EUR][1000 genomes]
rs6485616	0.81[EUR][1000 genomes]
rs6485619	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6485620	0.91[CEU][hapmap];0.87[CHB][hapmap];0.90[CHD][hapmap];0.90[GIH][hapmap];0.90[JPT][hapmap];0.90[TSI][hapmap];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7106802	0.82[EUR][1000 genomes]
rs7110287	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7112192	0.82[EUR][1000 genomes]
rs7112723	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7124597	0.82[EUR][1000 genomes]
rs7478974	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7479052	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7480542	0.81[EUR][1000 genomes]
rs7482739	0.86[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs7946683	0.82[EUR][1000 genomes]
rs9667484	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530619	chr11:45294176-45553928	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	esv2537828	chr11:45356121-45357741	Weak transcription Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs7925771	LRP4	cis	cerebellum	SCAN
rs7925771	NDUFS3	cis	cerebellum	SCAN
rs7925771	MYBPC3	cis	cerebellum	SCAN
rs7925771	LRP4	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:45353400-45357800	Enhancers	Fetal Muscle Leg	muscle
2	chr11:45354400-45359400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr11:45355200-45361000	Weak transcription	Fetal Kidney	kidney
4	chr11:45355600-45359400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr11:45355600-45359600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr11:45355600-45361200	Weak transcription	Fetal Stomach	stomach
7	chr11:45356200-45360600	Weak transcription	Fetal Brain Male	brain
8	chr11:45356400-45361000	Weak transcription	Fetal Brain Female	brain
9	chr11:45357400-45361400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links