Variant report

Variant	rs965359
Chromosome Location	chr1:159140376-159140377
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:0)
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	chr1:159140372-159140422	HIPEpiC	eye:	n/a
2	chr1:159140372-159140422	T-47D	breast:	n/a
3	chr1:159140372-159140422	AoSMC	blood vessel:	n/a
4	chr1:159140372-159140422	Jurkat	blood:	n/a
5	chr1:159140372-159140422	Hepatocyte	liver:	n/a
6	chr1:159140372-159140422	HRCEpiC	kidney:	n/a
7	chr1:159140372-159140422	SKMC	muscle:	n/a
8	chr1:159140372-159140422	GM06990	blood:	n/a
9	chr1:159140372-159140422	HepG2	liver:	n/a
10	chr1:159140372-159140422	HCT-116	colon:	n/a
11	chr1:159140372-159140422	AG09319	gingival:	n/a
12	chr1:159140372-159140422	SK-N-MC	brain:	n/a
13	chr1:159140372-159140422	PANC-1	pancreas:	n/a
14	chr1:159140372-159140422	IMR90	lung:	fetal
15	chr1:159140372-159140422	GM12878	blood:	n/a
16	chr1:159140372-159140422	U87	brain:	n/a
17	chr1:159140372-159140422	K562	blood:	n/a
18	chr1:159140372-159140422	AG10803	skin:	n/a
19	chr1:159140372-159140422	NHDF-neo	bronchial:	n/a
20	chr1:159140372-159140422	GM12891	blood:	n/a
21	chr1:159140372-159140422	HEEpiC	esophagus:	n/a
22	chr1:159140372-159140422	BJ	skin:	n/a
23	chr1:159140372-159140422	GM12892	blood:	n/a
24	chr1:159140372-159140422	NT2-D1	testis:	n/a
25	chr1:159140372-159140422	PrEC	prostate:	n/a
26	chr1:159140372-159140422	SAEC	small airway:	n/a
27	chr1:159140372-159140422	MCF-7	breast:	n/a
28	chr1:159140372-159140422	HAEpiC	amniotic membrane:	n/a
29	chr1:159140372-159140422	HCPEpiC	choroid plexus:	n/a
30	chr1:159140372-159140422	AG04450	lung:	fetal
31	chr1:159140372-159140422	HPAEpiC	pulmonary alveolar:	n/a
32	chr1:159140372-159140422	MCF10A-Er-Src	breast:	n/a
33	chr1:159140372-159140422	AG09309	skin:	n/a
34	chr1:159140372-159140422	HUVEC	blood vessel:	n/a
35	chr1:159140372-159140422	SK-N-SH_RA	brain:	n/a
36	chr1:159140372-159140422	HEK293	kidney:	embryo
37	chr1:159140372-159140422	Caco-2	colon:	n/a
38	chr1:159140372-159140422	Hela-S3	cervix:	n/a
39	chr1:159140372-159140422	ECC-1	luminal epithelium:	n/a
40	chr1:159140372-159140422	ovcar-3	ovarian:	n/a
41	chr1:159140372-159140422	NB4	blood:	n/a
42	chr1:159140372-159140422	BE2_C	brain:	n/a
43	chr1:159140372-159140422	AG04449	skin:	fetal
44	chr1:159140372-159140422	RPTEC	kidney:	n/a
45	chr1:159140372-159140422	NH-A	brain:	n/a
46	chr1:159140372-159140422	HRE	kidney:	n/a
47	chr1:159140372-159140422	NHBE	bronchial:	n/a
48	chr1:159140372-159140422	HNPCEpiC	eye:	n/a
49	chr1:159140372-159140422	GM19239	blood:	n/a
50	chr1:159140372-159140422	PFSK-1	brain:	n/a

No data

Variant related genes	Relation type
CADM3	CpG island

Extended variants
information (count: 3 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs12042284	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3027009	1.00[GIH][hapmap]
rs34861398	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs965359	ARHGEF2	cis	cerebellum	SCAN
rs965359	THBS3	cis	parietal	SCAN
rs965359	SLC39A1	cis	cerebellum	SCAN
rs965359	S100A4	cis	cerebellum	SCAN
rs965359	SLAMF8	cis	cerebellum	SCAN
rs965359	DARC	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:159133800-159141000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr1:159134000-159140800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr1:159138600-159140600	Weak transcription	Brain Anterior Caudate	brain
4	chr1:159139400-159140400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr1:159140200-159140800	Bivalent Enhancer	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links