Variant report

Variant	rs73015651
Chromosome Location	chr3:158450922-158450923
allele	C/T
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	E2F6	chr3:158449150-158450961	H1-hESC	embryonic stem cell:	n/a	chr3:158450363-158450370 chr3:158450363-158450370 chr3:158450363-158450370 chr3:158450469-158450481 chr3:158449768-158449778
2	MAX	chr3:158449465-158450931	A549	lung:	n/a	chr3:158449551-158449560
3	RAD21	chr3:158450730-158450994	H1-hESC	embryonic stem cell:	n/a	chr3:158450755-158450767 chr3:158450753-158450766
4	CEBPB	chr3:158449669-158450932	Hela-S3	cervix:	n/a	n/a
5	MAX	chr3:158449653-158450944	H1-hESC	embryonic stem cell:	n/a	n/a
6	SIN3A	chr3:158449403-158450925	H1-hESC	embryonic stem cell:	n/a	n/a
7	ZNF143	chr3:158450671-158451017	H1-hESC	embryonic stem cell:	n/a	n/a
8	SMARCB1	chr3:158449378-158450980	Hela-S3	cervix:	n/a	n/a
9	CTBP2	chr3:158449569-158450925	H1-hESC	embryonic stem cell:	n/a	n/a
10	GATA1	chr3:158449763-158451117	PBDE	blood:	n/a	n/a
11	CTCF	chr3:158450789-158450926	H1-hESC	embryonic stem cell:	n/a	n/a
12	CEBPB	chr3:158450163-158451018	A549	lung:	n/a	n/a
13	MAX	chr3:158449347-158451065	H1-hESC	embryonic stem cell:	n/a	chr3:158449551-158449560

No.	Distal block	Cell Line	Cell type
1	chr3:158450862..158452910-chr3:158453728..158455529,2	K562	blood:
2	chr3:158387127..158389095-chr3:158450464..158453049,2	MCF-7	breast:
3	chr3:158449938..158451943-chr3:158452978..158454973,2	K562	blood:

Variant related genes	Relation type
RARRES1	TF binding region
ENSG00000240207	TF binding region
ENSG00000079257	Chromatin interaction
ENSG00000240207	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs4264773	0.86[ASN][1000 genomes]
rs55835802	0.86[ASN][1000 genomes]
rs58152433	1.00[ASN][1000 genomes]
rs59217052	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59313096	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59918529	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59957986	1.00[ASN][1000 genomes]
rs61080878	0.86[ASN][1000 genomes]
rs61387735	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61558956	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61696028	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441222	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67301795	0.86[ASN][1000 genomes]
rs67305172	0.86[ASN][1000 genomes]
rs67446837	0.86[ASN][1000 genomes]
rs6775607	0.86[ASN][1000 genomes]
rs6788069	1.00[ASN][1000 genomes]
rs73015629	0.81[EUR][1000 genomes]
rs73015644	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73015649	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73015652	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73015654	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73015655	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73015657	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73015665	0.96[AFR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73015669	1.00[ASN][1000 genomes]
rs73017536	1.00[ASN][1000 genomes]
rs73017539	1.00[ASN][1000 genomes]
rs73017540	1.00[ASN][1000 genomes]
rs73017541	1.00[ASN][1000 genomes]
rs73158333	0.86[ASN][1000 genomes]
rs73158334	0.86[ASN][1000 genomes]
rs7609656	0.86[EUR][1000 genomes]
rs7617304	0.86[ASN][1000 genomes]
rs7621322	0.93[EUR][1000 genomes]
rs7624161	1.00[ASN][1000 genomes]
rs7636023	1.00[ASN][1000 genomes]
rs7646881	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7646987	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9864589	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002378	chr3:157715428-158673414	Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv1004124	chr3:158146715-158808638	Genic enhancers Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv530059	chr3:158332590-159147549	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv1014255	chr3:158358860-158768542	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv532665	chr3:158370013-158754245	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv948755	chr3:158388780-158672287	Enhancers Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS 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 target site	22 gene(s)	inside rSNPs	diseases
7	nsv877692	chr3:158430706-158828643	Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
8	nsv1001450	chr3:158440011-158768399	Weak transcription Flanking Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
9	nsv536777	chr3:158440011-158768399	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Active TSS 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	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:158449000-158451000	Active TSS	Fetal Kidney	kidney
2	chr3:158449200-158451000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
3	chr3:158449200-158451000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
4	chr3:158449400-158451000	Active TSS	H9 Cell Line	embryonic stem cell
5	chr3:158449400-158451000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
6	chr3:158449400-158451000	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr3:158449400-158451000	Flanking Active TSS	Right Ventricle	heart
8	chr3:158449600-158451000	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
9	chr3:158449600-158451000	Active TSS	Esophagus	oesophagus
10	chr3:158449600-158451000	Active TSS	Rectal Mucosa Donor 29	rectum
11	chr3:158449600-158451600	Active TSS	Duodenum Smooth Muscle	Duodenum
12	chr3:158449800-158451000	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
13	chr3:158449800-158451000	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr3:158449800-158451000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
15	chr3:158449800-158451000	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
16	chr3:158449800-158451000	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
17	chr3:158449800-158451000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr3:158449800-158451000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:158449800-158451000	Active TSS	Brain Cingulate Gyrus	brain
20	chr3:158449800-158451000	Active TSS	Brain Hippocampus Middle	brain
21	chr3:158449800-158451000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
22	chr3:158449800-158451000	Active TSS	Colon Smooth Muscle	Colon
23	chr3:158449800-158451000	Active TSS	Duodenum Mucosa	Duodenum
24	chr3:158449800-158451000	Enhancers	Fetal Brain Male	brain
25	chr3:158449800-158451000	Active TSS	Ovary	ovary
26	chr3:158449800-158451000	Active TSS	A549	lung
27	chr3:158449800-158451000	Active TSS	Hela-S3	cervix
28	chr3:158449800-158451400	Active TSS	Breast Myoepithelial Primary Cells	Breast
29	chr3:158449800-158483000	Weak transcription	Fetal Heart	heart
30	chr3:158450000-158451000	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr3:158450200-158451000	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr3:158450200-158451000	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr3:158450200-158451000	Active TSS	NHEK	skin
34	chr3:158450400-158451000	Flanking Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
35	chr3:158450400-158451000	Flanking Active TSS	Adipose Nuclei	Adipose
36	chr3:158450400-158451000	Flanking Active TSS	Stomach Smooth Muscle	stomach
37	chr3:158450400-158451000	Flanking Active TSS	NHLF	lung
38	chr3:158450400-158451000	Flanking Active TSS	Osteobl	bone
39	chr3:158450400-158451400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr3:158450400-158451600	Weak transcription	HSMMtube	muscle
41	chr3:158450400-158460000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
42	chr3:158450600-158451000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr3:158450600-158451000	Flanking Active TSS	Fetal Intestine Large	intestine
44	chr3:158450600-158451000	Enhancers	HMEC	breast
45	chr3:158450600-158452200	Weak transcription	Primary hematopoietic stem cells	blood
46	chr3:158450600-158453000	Weak transcription	Primary T cells from cord blood	blood
47	chr3:158450600-158465400	Weak transcription	Left Ventricle	heart
48	chr3:158450800-158451000	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr3:158450800-158451000	Enhancers	Cortex derived primary cultured neurospheres	brain
50	chr3:158450800-158451000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links