Variant report

Variant	rs58516736
Chromosome Location	chr22:30877309-30877310
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr22:30877308-30877358	HRE	kidney:	n/a
2	chr22:30877308-30877358	HCPEpiC	choroid plexus:	n/a
3	chr22:30877308-30877358	AoSMC	blood vessel:	n/a
4	chr22:30877308-30877358	AG04450	lung:	fetal
5	chr22:30877308-30877358	AG09309	skin:	n/a
6	chr22:30877308-30877358	SAEC	small airway:	n/a
7	chr22:30877308-30877358	NT2-D1	testis:	n/a
8	chr22:30877308-30877358	Caco-2	colon:	n/a
9	chr22:30877308-30877358	HepG2	liver:	n/a
10	chr22:30877308-30877358	LNCaP	prostate:	n/a
11	chr22:30877308-30877358	H1-hESC	embryonic stem cell:	embryo
12	chr22:30877308-30877358	Hela-S3	cervix:	n/a
13	chr22:30877308-30877358	BE2_C	brain:	n/a
14	chr22:30877308-30877358	PFSK-1	brain:	n/a
15	chr22:30877308-30877358	ECC-1	luminal epithelium:	n/a
16	chr22:30877308-30877358	SK-N-MC	brain:	n/a
17	chr22:30877308-30877358	HMEC	breast:	n/a
18	chr22:30877308-30877358	HIPEpiC	eye:	n/a
19	chr22:30877308-30877358	PrEC	prostate:	n/a
20	chr22:30877308-30877358	AG04449	skin:	fetal
21	chr22:30877308-30877358	GM06990	blood:	n/a
22	chr22:30877308-30877358	Jurkat	blood:	n/a
23	chr22:30877308-30877358	NH-A	brain:	n/a
24	chr22:30877308-30877358	NHBE	bronchial:	n/a
25	chr22:30877308-30877358	HUVEC	blood vessel:	n/a
26	chr22:30877308-30877358	Hepatocyte	liver:	n/a
27	chr22:30877308-30877358	HCM	heart:	n/a
28	chr22:30877308-30877358	HAEpiC	amniotic membrane:	n/a
29	chr22:30877308-30877358	CMK	blood:	n/a
30	chr22:30877308-30877358	U87	brain:	n/a
31	chr22:30877308-30877358	SK-N-SH_RA	brain:	n/a
32	chr22:30877308-30877358	GM12892	blood:	n/a
33	chr22:30877308-30877358	K562	blood:	n/a
34	chr22:30877308-30877358	SKMC	muscle:	n/a
35	chr22:30877308-30877358	NHDF-neo	bronchial:	n/a
36	chr22:30877308-30877358	T-47D	breast:	n/a
37	chr22:30877308-30877358	HCT-116	colon:	n/a
38	chr22:30877308-30877358	A549	lung:	n/a
39	chr22:30877308-30877358	HL-60	blood:	n/a
40	chr22:30877308-30877358	ProgFib	skin:	n/a
41	chr22:30877308-30877358	AG09319	gingival:	n/a
42	chr22:30877308-30877358	MCF10A-Er-Src	breast:	n/a
43	chr22:30877308-30877358	HRCEpiC	kidney:	n/a
44	chr22:30877308-30877358	HNPCEpiC	eye:	n/a
45	chr22:30877308-30877358	ovcar-3	ovarian:	n/a
46	chr22:30877308-30877358	BJ	skin:	n/a
47	chr22:30877308-30877358	HPAEpiC	pulmonary alveolar:	n/a
48	chr22:30877308-30877358	GM12878	blood:	n/a
49	chr22:30877308-30877358	GM12891	blood:	n/a
50	chr22:30877308-30877358	PANC-1	pancreas:	n/a

No data

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SEC14L4-1	chr22:30877277-30877743	NR_001580

No data

Variant related genes	Relation type
ENSG00000181123	CpG island

Extended variants
information (count: 12 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs56037418	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57372685	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs59462800	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60047896	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61741444	1.00[EUR][1000 genomes]
rs73392157	0.90[AFR][1000 genomes]
rs73392164	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73392165	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73881473	0.93[EUR][1000 genomes]
rs9606750	0.97[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	nsv829171	chr22:30598030-31043578	Active TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv915818	chr22:30708245-31346302	Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:30872800-30881400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr22:30874600-30894000	Weak transcription	Right Atrium	heart
3	chr22:30875800-30877600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr22:30876000-30877800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr22:30877200-30878400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links