Variant report

Variant	rs4778017
Chromosome Location	chr15:93168922-93168923
allele	A/G
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	RAD21	chr15:93168778-93169173	GM12878	blood:	n/a	chr15:93168934-93168941
2	EP300	chr15:93168420-93169284	GM12878	blood:	n/a	chr15:93169106-93169115
3	FOS	chr15:93168504-93169228	MCF10A-Er-Src	breast:	n/a	chr15:93169105-93169115 chr15:93169106-93169115 chr15:93169105-93169115 chr15:93169106-93169113
4	ZNF143	chr15:93168502-93169213	GM12878	blood:	n/a	n/a
5	STAT5A	chr15:93168661-93169293	GM12878	blood:	n/a	chr15:93169105-93169114 chr15:93168835-93168844
6	JUN	chr15:93168525-93169290	HUVEC	blood vessel:	n/a	chr15:93169105-93169115 chr15:93169106-93169115 chr15:93169105-93169115 chr15:93169106-93169113
7	SMC3	chr15:93168488-93169264	GM12878	blood:	n/a	n/a
8	CREB1	chr15:93168544-93169344	GM12878	blood:	n/a	n/a
9	MAX	chr15:93168582-93169182	GM12878	blood:	n/a	n/a
10	CTCF	chr15:93168840-93168990	HEEpiC	esophagus:	n/a	n/a
11	STAT5A	chr15:93168377-93169367	GM12878	blood:	n/a	chr15:93169105-93169114 chr15:93168636-93168645 chr15:93168835-93168844
12	FOS	chr15:93168478-93169267	HUVEC	blood vessel:	n/a	chr15:93169105-93169115 chr15:93169106-93169115 chr15:93169105-93169115 chr15:93169106-93169113
13	CTCF	chr15:93168784-93169121	GM12878	blood:	n/a	n/a
14	EBF1	chr15:93168413-93169358	GM12878	blood:	n/a	n/a
15	CTCF	chr15:93168820-93168970	GM12865	blood:	n/a	n/a
16	IRF4	chr15:93168612-93169148	GM12878	blood:	n/a	n/a
17	FOS	chr15:93168636-93169141	MCF10A-Er-Src	breast:	n/a	chr15:93169105-93169115 chr15:93169106-93169115 chr15:93169105-93169115 chr15:93169106-93169113
18	CTCF	chr15:93168922-93168984	GM10266	blood:	n/a	n/a
19	CTCF	chr15:93168860-93169010	HPAF	blood vessel:	n/a	n/a
20	CTCF	chr15:93168840-93168990	GM06990	blood:	n/a	n/a
21	BCLAF1	chr15:93168372-93169309	GM12878	blood:	n/a	chr15:93168674-93168683 chr15:93168835-93168844 chr15:93169105-93169114
22	POLR2A	chr15:93168916-93169005	HUVEC	blood vessel:	n/a	n/a
23	POLR2A	chr15:93168904-93169285	GM12878	blood:	n/a	n/a
24	FOS	chr15:93168554-93169247	MCF10A-Er-Src	breast:	n/a	chr15:93169105-93169115 chr15:93169106-93169115 chr15:93169105-93169115 chr15:93169106-93169113
25	ATF2	chr15:93168339-93169379	GM12878	blood:	n/a	n/a
26	CTCF	chr15:93168900-93169050	HPAF	blood vessel:	n/a	n/a
27	RCOR1	chr15:93168416-93169248	GM12878	blood:	n/a	n/a
28	CTCF	chr15:93168820-93168970	GM12873	blood:	n/a	n/a
29	NFATC1	chr15:93168507-93169307	GM12878	blood:	n/a	n/a
30	MTA3	chr15:93168405-93169382	GM12878	blood:	n/a	n/a
31	CHD2	chr15:93168414-93169207	GM12878	blood:	n/a	n/a
32	CUX1	chr15:93168450-93169207	GM12878	blood:	n/a	n/a
33	BCL3	chr15:93168487-93169148	GM12878	blood:	n/a	chr15:93168674-93168683 chr15:93168835-93168844 chr15:93169105-93169114
34	BATF	chr15:93168589-93169345	GM12878	blood:	n/a	chr15:93168907-93168915 chr15:93169107-93169117
35	CTCF	chr15:93168840-93168990	AG10803	skin:	n/a	n/a
36	RUNX3	chr15:93168386-93169362	GM12878	blood:	n/a	chr15:93169146-93169155 chr15:93169146-93169161
37	EBF1	chr15:93168853-93169167	GM12878	blood:	n/a	n/a
38	TBP	chr15:93168486-93169194	GM12878	blood:	n/a	n/a
39	FOXM1	chr15:93168447-93169364	GM12878	blood:	n/a	n/a
40	FOS	chr15:93168544-93168971	MCF10A-Er-Src	breast:	n/a	n/a
41	CTCF	chr15:93168920-93169070	HBMEC	blood vessel:	n/a	n/a
42	NFIC	chr15:93168416-93169394	GM12878	blood:	n/a	n/a
43	CTCF	chr15:93168880-93169030	HCPEpiC	choroid plexus:	n/a	n/a
44	CTCF	chr15:93168904-93169018	GM10248	blood:	n/a	n/a
45	NFIC	chr15:93168506-93169409	GM12878	blood:	n/a	n/a
46	TBL1XR1	chr15:93168540-93169197	GM12878	blood:	n/a	n/a
47	IRF4	chr15:93168626-93169322	GM12878	blood:	n/a	n/a
48	CTCF	chr15:93168909-93168983	GM12878	blood:	n/a	n/a
49	EP300	chr15:93168770-93169226	GM12878	blood:	n/a	chr15:93169106-93169115
50	SP1	chr15:93168509-93169282	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:93154756..93169106-chr15:93177301..93183879,27	MCF-7	breast:

Variant related genes	Relation type
ENSG00000259064	TF binding region
ENSG00000185442	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11074084	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12912253	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1866173	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs386357	0.97[ASN][1000 genomes]
rs400510	0.97[ASN][1000 genomes]
rs4778018	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8027029	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8027047	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037972	chr15:92804908-93270761	Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
2	nsv904499	chr15:92914795-93472582	Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	163 gene(s)	inside rSNPs	diseases
3	nsv948738	chr15:93070742-93728147	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
4	nsv1049490	chr15:93134405-93591660	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	151 gene(s)	inside rSNPs	diseases
5	esv1808537	chr15:93146057-93191935	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:93151600-93178000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:93158600-93169800	Weak transcription	Primary T cells from cord blood	blood
3	chr15:93160200-93172800	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr15:93161200-93170200	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr15:93161200-93170400	Weak transcription	Duodenum Mucosa	Duodenum
6	chr15:93161200-93173000	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr15:93161400-93178000	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr15:93161800-93172600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr15:93162400-93172000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr15:93163600-93180600	Weak transcription	Small Intestine	intestine
11	chr15:93164000-93172200	Weak transcription	Ovary	ovary
12	chr15:93166000-93169200	Enhancers	Right Ventricle	heart
13	chr15:93166000-93169400	Enhancers	Fetal Muscle Leg	muscle
14	chr15:93166000-93169600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr15:93166400-93169200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:93166400-93169200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr15:93166400-93169200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr15:93166400-93169800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr15:93166600-93169400	Enhancers	Muscle Satellite Cultured Cells	--
20	chr15:93166800-93169200	Enhancers	Brain Angular Gyrus	brain
21	chr15:93166800-93169200	Enhancers	Brain Substantia Nigra	brain
22	chr15:93166800-93169200	Enhancers	Colon Smooth Muscle	Colon
23	chr15:93166800-93170400	Enhancers	HUVEC	blood vessel
24	chr15:93167000-93169000	Enhancers	Stomach Mucosa	stomach
25	chr15:93167000-93169200	Enhancers	Rectal Smooth Muscle	rectum
26	chr15:93167000-93169400	Enhancers	Fetal Lung	lung
27	chr15:93167000-93177400	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr15:93167200-93169000	Enhancers	Skeletal Muscle Female	skeletal muscle
29	chr15:93167200-93169200	Enhancers	Duodenum Smooth Muscle	Duodenum
30	chr15:93167200-93169200	Enhancers	Right Atrium	heart
31	chr15:93167200-93169400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr15:93167400-93169200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr15:93167400-93169200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr15:93167600-93169000	Enhancers	NHDF-Ad	bronchial
35	chr15:93167600-93169400	Enhancers	Fetal Stomach	stomach
36	chr15:93167600-93176400	Weak transcription	Fetal Heart	heart
37	chr15:93167800-93169000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr15:93167800-93169000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr15:93167800-93178200	Weak transcription	Colonic Mucosa	Colon
40	chr15:93167800-93179800	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr15:93168000-93169200	Enhancers	NHEK	skin
42	chr15:93168000-93170000	Enhancers	HSMMtube	muscle
43	chr15:93168200-93169200	Enhancers	Brain Cingulate Gyrus	brain
44	chr15:93168200-93169200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
45	chr15:93168200-93169400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr15:93168200-93169400	Weak transcription	Fetal Muscle Trunk	muscle
47	chr15:93168200-93169800	Weak transcription	Pancreas	Pancrea
48	chr15:93168200-93170000	Enhancers	HSMM	muscle
49	chr15:93168200-93172200	Weak transcription	Left Ventricle	heart
50	chr15:93168200-93173000	Weak transcription	Esophagus	oesophagus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links