Variant report

Variant	rs572440790
Chromosome Location	chr3:99944478-99944479
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr3:99944474-99944515	Fibrobl	skin:	n/a	n/a

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr3:99944461-99944511	Caco-2	colon:	n/a
2	chr3:99944461-99944511	T-47D	breast:	n/a
3	chr3:99944461-99944511	HNPCEpiC	eye:	n/a
4	chr3:99944461-99944511	H1-hESC	embryonic stem cell:	embryo
5	chr3:99944461-99944511	NH-A	brain:	n/a
6	chr3:99944461-99944511	U87	brain:	n/a
7	chr3:99944461-99944511	CMK	blood:	n/a
8	chr3:99944461-99944511	GM19239	blood:	n/a
9	chr3:99944461-99944511	NHDF-neo	bronchial:	n/a
10	chr3:99944461-99944511	HL-60	blood:	n/a
11	chr3:99944461-99944511	BJ	skin:	n/a
12	chr3:99944461-99944511	AG09309	skin:	n/a
13	chr3:99944461-99944511	Jurkat	blood:	n/a
14	chr3:99944461-99944511	MCF-7	breast:	n/a
15	chr3:99944461-99944511	NHBE	bronchial:	n/a
16	chr3:99944461-99944511	HepG2	liver:	n/a
17	chr3:99944461-99944511	HEEpiC	esophagus:	n/a
18	chr3:99944461-99944511	GM12878	blood:	n/a
19	chr3:99944461-99944511	NB4	blood:	n/a
20	chr3:99944461-99944511	PFSK-1	brain:	n/a
21	chr3:99944461-99944511	AG09319	gingival:	n/a
22	chr3:99944461-99944511	GM12891	blood:	n/a
23	chr3:99944461-99944511	PANC-1	pancreas:	n/a
24	chr3:99944461-99944511	RPTEC	kidney:	n/a
25	chr3:99944461-99944511	AG10803	skin:	n/a
26	chr3:99944461-99944511	HRE	kidney:	n/a
27	chr3:99944461-99944511	SK-N-SH	brain:	n/a
28	chr3:99944461-99944511	HPAEpiC	pulmonary alveolar:	n/a
29	chr3:99944461-99944511	HRPEpiC	eye:	n/a
30	chr3:99944461-99944511	PrEC	prostate:	n/a
31	chr3:99944461-99944511	AoSMC	blood vessel:	n/a
32	chr3:99944461-99944511	ProgFib	skin:	n/a
33	chr3:99944461-99944511	HEK293	kidney:	embryo
34	chr3:99944461-99944511	HCPEpiC	choroid plexus:	n/a
35	chr3:99944461-99944511	IMR90	lung:	fetal
36	chr3:99944461-99944511	SAEC	small airway:	n/a
37	chr3:99944461-99944511	GM12892	blood:	n/a
38	chr3:99944461-99944511	LNCaP	prostate:	n/a
39	chr3:99944461-99944511	NT2-D1	testis:	n/a
40	chr3:99944461-99944511	SKMC	muscle:	n/a
41	chr3:99944461-99944511	MCF10A-Er-Src	breast:	n/a
42	chr3:99944461-99944511	SK-N-MC	brain:	n/a
43	chr3:99944461-99944511	GM06990	blood:	n/a
44	chr3:99944461-99944511	BE2_C	brain:	n/a
45	chr3:99944461-99944511	HCM	heart:	n/a
46	chr3:99944461-99944511	HUVEC	blood vessel:	n/a
47	chr3:99944461-99944511	AG04449	skin:	fetal
48	chr3:99944461-99944511	AG04450	lung:	fetal
49	chr3:99944461-99944511	HIPEpiC	eye:	n/a
50	chr3:99944461-99944511	HCT-116	colon:	n/a

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:99939496..99942041-chr3:99942965..99946163,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000238377	TF binding region
ENSG00000238377	CpG island
ENSG00000238377	Chromatin interaction

Extended variants
information (count: 4 )
Associated
traits (count: 0)

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	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv1003924	chr3:99933762-100112690	Strong transcription Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv967043	chr3:99944303-99944955	Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99944400-99945200	Weak transcription	Placenta	Placenta
2	chr3:99944400-99945400	Enhancers	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links