Variant report

Variant	rs16958010
Chromosome Location	chr15:73857048-73857049
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr15:73856623-73857109	HUVEC	blood vessel:	n/a	chr15:73856848-73856857 chr15:73856847-73856859 chr15:73856849-73856857 chr15:73856849-73856858 chr15:73856847-73856858 chr15:73856849-73856856
2	MYC	chr15:73856431-73857081	NB4	blood:	n/a	chr15:73856849-73856858 chr15:73856704-73856714 chr15:73856848-73856857
3	ATF3	chr15:73856748-73857051	K562	blood:	n/a	n/a
4	JUN	chr15:73856266-73857222	K562	blood:	n/a	chr15:73856848-73856857 chr15:73856847-73856859 chr15:73856849-73856857 chr15:73856849-73856858 chr15:73856849-73856856
5	JUND	chr15:73856481-73857072	K562	blood:	n/a	chr15:73856847-73856858 chr15:73856848-73856857 chr15:73856847-73856859 chr15:73856849-73856857 chr15:73856849-73856858 chr15:73856849-73856856
6	TEAD4	chr15:73856467-73857125	K562	blood:	n/a	n/a
7	MAX	chr15:73856424-73857135	HCT-116	colon:	n/a	chr15:73856849-73856858 chr15:73856704-73856714 chr15:73856848-73856857
8	JUN	chr15:73856637-73857057	K562	blood:	n/a	chr15:73856848-73856857 chr15:73856847-73856859 chr15:73856849-73856857 chr15:73856849-73856858 chr15:73856849-73856856
9	JUND	chr15:73856405-73857454	SK-N-SH	brain:	n/a	chr15:73856847-73856858 chr15:73856848-73856857 chr15:73856847-73856859 chr15:73856849-73856857 chr15:73856849-73856858 chr15:73856849-73856856
10	TEAD4	chr15:73856553-73857087	K562	blood:	n/a	n/a
11	TAL1	chr15:73856552-73857176	K562	blood:	n/a	n/a
12	FOSL1	chr15:73856630-73857063	K562	blood:	n/a	chr15:73856847-73856858 chr15:73856848-73856857 chr15:73856847-73856859 chr15:73856849-73856857 chr15:73856849-73856858 chr15:73856849-73856856
13	POLR2A	chr15:73856801-73857072	K562	blood:	n/a	n/a
14	JUND	chr15:73856619-73857059	Hela-S3	cervix:	n/a	chr15:73856847-73856858 chr15:73856848-73856857 chr15:73856847-73856859 chr15:73856849-73856857 chr15:73856849-73856858 chr15:73856849-73856856
15	POLR2A	chr15:73856798-73857062	K562	blood:	n/a	n/a
16	MXI1	chr15:73856467-73857100	IMR90	lung:	n/a	n/a
17	GATA2	chr15:73856523-73857075	K562	blood:	n/a	chr15:73856671-73856684
18	CEBPD	chr15:73856561-73857186	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:73855450..73857739-chr15:73925955..73927854,2	K562	blood:
2	chr15:73856862..73860263-chr15:73923862..73927782,5	MCF-7	breast:
3	chr15:73853723..73855768-chr15:73855937..73858133,2	MCF-7	breast:
4	chr15:73855450..73858620-chr15:73925363..73927455,3	K562	blood:

Variant related genes	Relation type
NPTN	TF binding region
ENSG00000156642	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10851862	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11072422	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11072425	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11072426	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11072435	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11632314	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11638829	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11639269	1.00[EUR][1000 genomes]
rs12050665	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16957980	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16958014	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2306463	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2306464	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56084520	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56296045	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60401042	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7168262	1.00[CEU][hapmap]
rs7168736	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7178269	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9635319	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9635375	1.00[EUR][1000 genomes];0.96[ASN][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	nsv1037540	chr15:73712637-73982420	Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv904344	chr15:73800519-73864831	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16958010	FABP4	trans	brain	seeQTL

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73837000-73860000	Weak transcription	Gastric	stomach
2	chr15:73844200-73863800	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr15:73844800-73865200	Weak transcription	Stomach Mucosa	stomach
4	chr15:73846200-73863800	Strong transcription	Duodenum Mucosa	Duodenum
5	chr15:73846400-73863200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr15:73847400-73862000	Strong transcription	Fetal Intestine Large	intestine
7	chr15:73847400-73866000	Strong transcription	Adipose Nuclei	Adipose
8	chr15:73847400-73893200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr15:73847600-73858200	Strong transcription	Rectal Mucosa Donor 31	rectum
10	chr15:73847600-73865000	Strong transcription	Rectal Mucosa Donor 29	rectum
11	chr15:73847600-73865400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr15:73847600-73865800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr15:73847600-73866200	Strong transcription	Liver	Liver
14	chr15:73847600-73882400	Strong transcription	Placenta	Placenta
15	chr15:73847800-73858400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr15:73848000-73860000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr15:73848000-73860600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr15:73848600-73860600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr15:73848600-73868600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr15:73848600-73868600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr15:73848800-73858200	Strong transcription	Primary B cells from peripheral blood	blood
22	chr15:73848800-73861000	Weak transcription	Small Intestine	intestine
23	chr15:73848800-73884800	Strong transcription	Primary T helper cells fromperipheralblood	blood
24	chr15:73848800-73885000	Strong transcription	Primary B cells from cord blood	blood
25	chr15:73849400-73860400	Weak transcription	Pancreas	Pancrea
26	chr15:73850000-73868600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
27	chr15:73850200-73861600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
28	chr15:73850200-73884400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
29	chr15:73850400-73866200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr15:73850400-73870800	Strong transcription	Primary T cells fromperipheralblood	blood
31	chr15:73850600-73857600	Strong transcription	HUES6 Cell Line	embryonic stem cell
32	chr15:73850800-73857800	Weak transcription	Esophagus	oesophagus
33	chr15:73851200-73861000	Strong transcription	Fetal Muscle Trunk	muscle
34	chr15:73852200-73861200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr15:73852200-73861600	Weak transcription	Fetal Brain Male	brain
36	chr15:73852200-73874600	Weak transcription	Fetal Heart	heart
37	chr15:73853200-73859200	Strong transcription	Sigmoid Colon	Sigmoid Colon
38	chr15:73853400-73857200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr15:73853400-73857600	Strong transcription	Lung	lung
40	chr15:73853400-73864200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr15:73853400-73869000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr15:73853600-73858400	Weak transcription	NHLF	lung
43	chr15:73853800-73860800	Weak transcription	Fetal Kidney	kidney
44	chr15:73853800-73868600	Strong transcription	Primary T cells from cord blood	blood
45	chr15:73854000-73860000	Weak transcription	Aorta	Aorta
46	chr15:73854200-73859200	Strong transcription	Primary T helper cells PMA-I stimulated	--
47	chr15:73854800-73858200	Strong transcription	HepG2	liver
48	chr15:73855200-73867000	Strong transcription	GM12878-XiMat	blood
49	chr15:73855400-73869200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr15:73855800-73857400	Genic enhancers	Primary mononuclear cells fromperipheralblood	Blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links