Variant report

Variant	rs11014171
Chromosome Location	chr10:18711195-18711196
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10828666	0.89[EUR][1000 genomes]
rs11014166	1.00[CEU][hapmap];0.85[YRI][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12258967	0.83[CEU][hapmap]
rs17613287	0.86[EUR][1000 genomes]
rs1813353	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4548524	0.87[CEU][hapmap];0.92[CHB][hapmap];0.91[CHD][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6482423	0.85[EUR][1000 genomes]
rs66677106	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs67744136	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7091067	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7897101	0.86[EUR][1000 genomes]
rs976785	0.92[EUR][1000 genomes]
rs998229	0.88[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	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1053675	chr10:18703895-18722912	Enhancers Weak transcription Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11014171	RPP38	cis	parietal	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18690200-18713000	Weak transcription	Ovary	ovary
2	chr10:18692000-18712600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr10:18703200-18711200	Weak transcription	Stomach Smooth Muscle	stomach
4	chr10:18703600-18732000	Weak transcription	Pancreas	Pancrea
5	chr10:18707800-18713000	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr10:18707800-18713000	Weak transcription	Left Ventricle	heart
7	chr10:18708000-18713000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr10:18708000-18713200	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr10:18708200-18712200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr10:18710400-18711600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr10:18710800-18715200	Enhancers	Fetal Heart	heart

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links