Variant report

Variant	rs11947899
Chromosome Location	chr4:86485793-86485794
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs12501836	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12651680	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17384463	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1871823	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2128101	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2904069	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4693708	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6821858	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72979934	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9760558	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[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	nsv519588	chr4:85762385-86591202	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv461566	chr4:85988032-86725502	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	nsv594747	chr4:85988032-86725502	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	nsv470048	chr4:85998783-86720838	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' 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
rs11947899	ARHGAP24	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:86475600-86488000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr4:86476800-86491800	Weak transcription	NHDF-Ad	bronchial
3	chr4:86477000-86493000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr4:86477200-86487200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr4:86477600-86486400	Weak transcription	HSMM	muscle
6	chr4:86477600-86494600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr4:86478000-86501000	Weak transcription	Right Ventricle	heart
8	chr4:86479000-86486600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr4:86479000-86493800	Weak transcription	Spleen	Spleen
10	chr4:86479400-86488600	Weak transcription	Psoas Muscle	Psoas
11	chr4:86482200-86491600	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr4:86484800-86486600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr4:86484800-86486800	Weak transcription	Primary B cells from cord blood	blood
14	chr4:86484800-86489800	Enhancers	Primary neutrophils fromperipheralblood	blood
15	chr4:86484800-86491600	Weak transcription	Fetal Muscle Leg	muscle
16	chr4:86485200-86491600	Enhancers	Primary B cells from peripheral blood	blood

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