Variant report

Variant	rs4916858
Chromosome Location	chr5:90601290-90601291
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:90600240..90601838-chr5:90603376..90605549,2	K562	blood:
2	chr5:90596993..90603089-chr5:90675309..90679333,6	MCF-7	breast:
3	chr5:90590416..90593058-chr5:90599643..90601505,2	K562	blood:
4	chr5:90600132..90605007-chr5:90674988..90680589,6	K562	blood:
5	chr5:90600628..90605200-chr5:90606247..90608761,5	K562	blood:
6	chr5:90600532..90604276-chr5:90606355..90609607,4	K562	blood:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ARRDC3-1	chr5:90599690-90606849	XLOC_004924

No data

Variant related genes	Relation type
ENSG00000248323	Chromatin interaction
ENSG00000113369	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10038890	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs10050517	0.91[CHB][hapmap];0.86[CHD][hapmap]
rs10072084	0.91[CHB][hapmap];0.81[CHD][hapmap]
rs10434640	0.81[ASN][1000 genomes]
rs10473943	0.91[CHB][hapmap]
rs10474342	0.91[CHB][hapmap]
rs11740007	0.91[CHB][hapmap]
rs11740321	0.91[CHB][hapmap]
rs12514092	0.90[CHB][hapmap]
rs12697808	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs13164949	0.90[CHB][hapmap]
rs1473047	0.91[CHB][hapmap]
rs2367292	0.84[ASW][hapmap];0.86[CHB][hapmap];0.84[CHD][hapmap]
rs4639266	0.90[ASN][1000 genomes]
rs4916855	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4916856	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs973332	0.86[CHB][hapmap];0.84[CHD][hapmap]
rs997737	0.86[CHB][hapmap];0.84[CHD][hapmap]

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	nsv1024813	chr5:90321535-90870739	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
2	nsv537806	chr5:90321535-90870739	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4916858	AKR1A1	trans	parietal	SCAN

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:90589800-90607400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr5:90593000-90602400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr5:90593000-90606400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr5:90593000-90607000	Weak transcription	Left Ventricle	heart
5	chr5:90593000-90607000	Weak transcription	HSMMtube	muscle
6	chr5:90593200-90601800	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr5:90593200-90601800	Weak transcription	HMEC	breast
8	chr5:90597800-90602200	Weak transcription	Osteobl	bone
9	chr5:90597800-90602400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr5:90598000-90602600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr5:90598000-90602600	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr5:90598000-90606800	Weak transcription	Adipose Nuclei	Adipose
13	chr5:90598000-90607000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr5:90598400-90601800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr5:90598400-90602400	Weak transcription	Right Atrium	heart
16	chr5:90598400-90603600	Weak transcription	Primary monocytes fromperipheralblood	blood
17	chr5:90598400-90606000	Weak transcription	Primary B cells from cord blood	blood
18	chr5:90598800-90601800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr5:90599000-90601400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr5:90599000-90601400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr5:90599000-90601600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr5:90599000-90601600	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr5:90599000-90602000	Weak transcription	NHDF-Ad	bronchial
24	chr5:90599000-90607200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr5:90599200-90601400	Weak transcription	A549	lung
26	chr5:90599600-90601600	Weak transcription	Hela-S3	cervix
27	chr5:90600000-90601600	Strong transcription	Primary neutrophils fromperipheralblood	blood
28	chr5:90600400-90607000	Weak transcription	Brain Hippocampus Middle	brain
29	chr5:90600600-90601600	Weak transcription	Brain Cingulate Gyrus	brain
30	chr5:90600800-90607200	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr5:90601200-90602000	Enhancers	Cortex derived primary cultured neurospheres	brain
32	chr5:90601200-90602200	Enhancers	Brain Substantia Nigra	brain
33	chr5:90601200-90602600	Enhancers	Psoas Muscle	Psoas
34	chr5:90601200-90603200	Enhancers	Skeletal Muscle Male	skeletal muscle
35	chr5:90601200-90603600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr5:90601200-90603800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links