Variant report

Variant	rs4777588
Chromosome Location	chr15:73400821-73400822
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:48584264..48586070-chr15:73400164..73402226,2	MCF-7	breast:
2	chr15:73400733..73403020-chr15:73403252..73405301,2	MCF-7	breast:
3	chr15:73400613..73403499-chr15:73403572..73405490,2	K562	blood:
4	chr15:73395969..73398867-chr15:73399975..73402256,3	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1017808	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11072405	0.86[ASN][1000 genomes]
rs11072407	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11072408	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11072411	0.80[EUR][1000 genomes]
rs1119251	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11634045	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11636981	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11856537	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439852	0.81[EUR][1000 genomes]
rs12442755	0.80[EUR][1000 genomes]
rs12594776	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12595434	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12901272	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12901649	0.87[ASN][1000 genomes]
rs12912737	0.87[ASN][1000 genomes]
rs1382782	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1564347	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1585766	0.86[ASN][1000 genomes]
rs16957683	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1904335	0.87[ASN][1000 genomes]
rs2061890	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2415142	0.88[ASN][1000 genomes]
rs2415145	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2415146	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28742992	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34953385	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35348961	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35391014	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35608416	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs36072085	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3784795	0.81[EUR][1000 genomes]
rs4776623	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4776631	0.82[EUR][1000 genomes]
rs4777585	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4777587	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4777592	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59628124	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6495045	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6495046	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6495050	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6495051	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6495052	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6495053	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6495057	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6495058	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7168555	0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7177758	0.85[ASN][1000 genomes]
rs7184025	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7495084	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8039418	0.83[ASN][1000 genomes]
rs8043494	0.83[EUR][1000 genomes]
rs9806269	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs983067	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3352103	chr15:73191535-73454001	Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv482421	chr15:73279141-73426897	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
3	nsv904338	chr15:73313691-73483718	Enhancers Active TSS Strong transcription ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv517966	chr15:73349633-73488753	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv525462	chr15:73349633-73563495	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv904339	chr15:73375847-73483718	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv904340	chr15:73375847-73524629	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv904341	chr15:73390790-73483718	ZNF genes & repeats Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv904342	chr15:73390790-73524629	Enhancers ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv904343	chr15:73396760-73775043	Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73384600-73409200	Weak transcription	Fetal Lung	lung
2	chr15:73388800-73431200	Weak transcription	Rectal Smooth Muscle	rectum
3	chr15:73389000-73401000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:73389000-73404000	Weak transcription	Ovary	ovary
5	chr15:73393200-73422400	Weak transcription	Aorta	Aorta
6	chr15:73394000-73403400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr15:73394200-73414800	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr15:73394400-73415000	Weak transcription	Fetal Stomach	stomach
9	chr15:73395200-73402200	Enhancers	Fetal Intestine Large	intestine
10	chr15:73395600-73402200	Enhancers	Fetal Intestine Small	intestine
11	chr15:73396000-73406400	Weak transcription	Gastric	stomach
12	chr15:73396400-73444600	Weak transcription	Psoas Muscle	Psoas
13	chr15:73397200-73409200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr15:73397400-73401000	Weak transcription	Pancreas	Pancrea
15	chr15:73398400-73415000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr15:73399800-73401600	Enhancers	Brain Substantia Nigra	brain
17	chr15:73399800-73402000	Enhancers	Duodenum Mucosa	Duodenum
18	chr15:73400200-73401400	Enhancers	Small Intestine	intestine
19	chr15:73400400-73401200	Enhancers	iPS-20b Cell Line	embryonic stem cell
20	chr15:73400400-73434200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr15:73400600-73401000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr15:73400800-73401200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr15:73400800-73401200	Enhancers	Brain Anterior Caudate	brain
24	chr15:73400800-73401200	Enhancers	Brain Cingulate Gyrus	brain
25	chr15:73400800-73401400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr15:73400800-73401400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr15:73400800-73401400	Enhancers	Brain Angular Gyrus	brain
28	chr15:73400800-73401400	Enhancers	Brain Hippocampus Middle	brain
29	chr15:73400800-73401400	Enhancers	Brain Inferior Temporal Lobe	brain
30	chr15:73400800-73401600	Enhancers	HUES64 Cell Line	embryonic stem cell
31	chr15:73400800-73402400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links