Variant report

Variant	rs17388899
Chromosome Location	chr4:86502987-86502988
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:86498940..86503292-chr4:86514616..86519116,5	K562	blood:
2	chr4:86501012..86504553-chr4:86506975..86511546,6	K562	blood:
3	chr4:86500513..86506066-chr4:86507580..86511443,7	K562	blood:

Extended variants
information (count: 114 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:108)

rs_ID	r²[population]
rs10000472	0.82[ASN][1000 genomes]
rs10017042	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10018069	0.82[ASN][1000 genomes]
rs10018180	0.82[ASN][1000 genomes]
rs10028585	0.82[ASN][1000 genomes]
rs1031988	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs10454245	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1161259	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11930449	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12501951	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12503598	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12504294	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12506009	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12506100	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12506145	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12506596	0.90[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12509634	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12640411	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12641068	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12644260	0.82[ASN][1000 genomes]
rs12644694	0.82[ASN][1000 genomes]
rs12644703	0.82[ASN][1000 genomes]
rs12647949	0.82[ASN][1000 genomes]
rs12648939	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12650652	0.82[ASN][1000 genomes]
rs13104640	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1351551	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1384132	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1384134	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1384135	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1384136	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1384137	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1471605	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1471607	0.82[ASN][1000 genomes]
rs1600840	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs17389300	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs17389342	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1905083	0.82[ASN][1000 genomes]
rs1905084	0.82[ASN][1000 genomes]
rs2128185	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs28361935	0.82[ASN][1000 genomes]
rs28423069	0.82[ASN][1000 genomes]
rs28475794	0.82[ASN][1000 genomes]
rs28481407	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs28483433	0.82[ASN][1000 genomes]
rs28719006	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs28863335	0.81[AMR][1000 genomes]
rs28867780	0.81[AMR][1000 genomes]
rs28888099	0.82[ASN][1000 genomes]
rs2904073	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs34837792	0.82[AMR][1000 genomes]
rs35592449	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4447855	0.86[AMR][1000 genomes]
rs4450919	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4693118	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4693122	0.82[ASN][1000 genomes]
rs4693710	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4693716	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4693725	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs55798888	0.82[ASN][1000 genomes]
rs56266001	0.82[ASN][1000 genomes]
rs57572817	0.80[AMR][1000 genomes]
rs59051404	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs59682579	0.81[AMR][1000 genomes]
rs59940085	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs61120164	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs61255139	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs61503855	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs62315277	0.81[ASN][1000 genomes]
rs62315278	0.82[ASN][1000 genomes]
rs62315287	0.82[AMR][1000 genomes]
rs62315290	0.82[AMR][1000 genomes]
rs62315648	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62317179	0.90[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs62317184	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs62317186	0.86[AMR][1000 genomes]
rs62317188	0.81[AMR][1000 genomes]
rs62317189	0.86[AMR][1000 genomes]
rs62317213	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs62317214	0.86[AMR][1000 genomes]
rs62317215	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs62317218	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6531846	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6531847	0.82[ASN][1000 genomes]
rs67431978	0.82[ASN][1000 genomes]
rs6814977	0.80[AMR][1000 genomes]
rs6817114	0.82[ASN][1000 genomes]
rs6817221	0.82[ASN][1000 genomes]
rs6817542	0.82[ASN][1000 genomes]
rs6817549	0.82[ASN][1000 genomes]
rs72613142	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72613143	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs72613144	0.85[AMR][1000 genomes]
rs7655020	0.82[ASN][1000 genomes]
rs7669207	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7669879	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7671404	0.82[ASN][1000 genomes]
rs7672353	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7681072	0.81[AMR][1000 genomes]
rs7683928	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7689508	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7695028	0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7697937	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7698610	0.81[AMR][1000 genomes]
rs9884932	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9996348	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9996446	0.81[AMR][1000 genomes]
rs9997730	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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
5	esv3450999	chr4:86485840-86773745	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
6	nsv829999	chr4:86500257-86666019	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17388899	ARHGAP24	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:86486000-86509200	Weak transcription	Left Ventricle	heart
2	chr4:86487000-86509200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr4:86487200-86521200	Weak transcription	HSMMtube	muscle
4	chr4:86488800-86512400	Weak transcription	Fetal Muscle Trunk	muscle
5	chr4:86492600-86517000	Weak transcription	Adipose Nuclei	Adipose
6	chr4:86495000-86516200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr4:86495200-86512200	Weak transcription	NHDF-Ad	bronchial
8	chr4:86497400-86516800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr4:86498800-86512400	Weak transcription	Psoas Muscle	Psoas
10	chr4:86502000-86503600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr4:86502000-86505400	Weak transcription	Primary B cells from peripheral blood	blood
12	chr4:86502000-86506000	Weak transcription	Primary B cells from cord blood	blood
13	chr4:86502000-86511600	Weak transcription	Fetal Muscle Leg	muscle
14	chr4:86502000-86517200	Weak transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links