Variant report

Variant	rs4141952
Chromosome Location	chr13:67209844-67209845
allele	G/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	TCF12	chr13:67209472-67210190	SK-N-SH	brain:	n/a	n/a
2	FOS	chr13:67209560-67210098	HUVEC	blood vessel:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209889-67209900 chr13:67209891-67209900
3	PBX3	chr13:67209494-67210152	SK-N-SH	brain:	n/a	n/a
4	JUND	chr13:67209479-67210161	SK-N-SH	brain:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209805-67209816 chr13:67209891-67209900
5	FOS	chr13:67209666-67210054	Hela-S3	cervix:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209889-67209900 chr13:67209891-67209900
6	GATA3	chr13:67209458-67210142	SK-N-SH	brain:	n/a	chr13:67209889-67209898 chr13:67209805-67209814
7	TEAD4	chr13:67209510-67210242	SK-N-SH	brain:	n/a	n/a
8	CEBPB	chr13:67209677-67210025	IMR90	lung:	n/a	n/a
9	JUND	chr13:67209500-67210162	SK-N-SH	brain:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209805-67209816 chr13:67209891-67209900
10	JUN	chr13:67209566-67210130	HUVEC	blood vessel:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209891-67209900
11	MAX	chr13:67209516-67210028	SK-N-SH	brain:	n/a	chr13:67209806-67209815
12	POLR2A	chr13:67209621-67210202	MCF10A-Er-Src	breast:	n/a	n/a
13	STAT3	chr13:67209679-67210272	MCF10A-Er-Src	breast:	n/a	chr13:67209807-67209816 chr13:67209890-67209899
14	STAT3	chr13:67209648-67210061	Hela-S3	cervix:	n/a	chr13:67209807-67209816 chr13:67209890-67209899
15	FOS	chr13:67209554-67210319	MCF10A-Er-Src	breast:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209889-67209900 chr13:67209891-67209900
16	FOSL2	chr13:67209623-67210089	SK-N-SH	brain:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209891-67209900
17	JUN	chr13:67209643-67210183	Hela-S3	cervix:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209891-67209900
18	MAX	chr13:67209528-67210120	ECC-1	luminal epithelium:	n/a	chr13:67209806-67209815
19	FOXM1	chr13:67209458-67210255	ECC-1	luminal epithelium:	n/a	n/a
20	FOSL2	chr13:67209575-67210186	A549	lung:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209891-67209900
21	FOS	chr13:67209433-67210080	MCF10A-Er-Src	breast:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209889-67209900 chr13:67209891-67209900
22	STAT3	chr13:67209754-67209964	MCF10A-Er-Src	breast:	n/a	chr13:67209807-67209816 chr13:67209890-67209899
23	RAD21	chr13:67209636-67209995	Hela-S3	cervix:	n/a	n/a
24	GATA3	chr13:67209433-67210203	SK-N-SH	brain:	n/a	chr13:67209889-67209898 chr13:67209805-67209814
25	RFX5	chr13:67209621-67210070	Hela-S3	cervix:	n/a	n/a
26	RCOR1	chr13:67209574-67210027	Hela-S3	cervix:	n/a	n/a
27	E2F4	chr13:67209765-67210189	MCF10A-Er-Src	breast:	n/a	n/a
28	FOSL2	chr13:67209466-67210209	SK-N-SH	brain:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209891-67209900
29	TEAD4	chr13:67209596-67210099	ECC-1	luminal epithelium:	n/a	n/a
30	FOS	chr13:67209592-67210132	MCF10A-Er-Src	breast:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209889-67209900 chr13:67209891-67209900
31	EP300	chr13:67209442-67210229	SK-N-SH	brain:	n/a	chr13:67209806-67209815 chr13:67209891-67209900
32	JUN	chr13:67209772-67209922	HepG2	liver:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209891-67209900
33	TEAD4	chr13:67209496-67210109	ECC-1	luminal epithelium:	n/a	n/a
34	JUND	chr13:67209440-67210051	SK-N-SH	brain:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209805-67209816 chr13:67209891-67209900
35	TEAD4	chr13:67209693-67210136	SK-N-SH	brain:	n/a	n/a
36	EP300	chr13:67209485-67210143	ECC-1	luminal epithelium:	n/a	chr13:67209806-67209815 chr13:67209891-67209900
37	FOSL2	chr13:67209678-67210025	A549	lung:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209891-67209900
38	ZBTB33	chr13:67209599-67210067	SK-N-SH	brain:	n/a	n/a
39	NFIC	chr13:67209555-67210201	ECC-1	luminal epithelium:	n/a	n/a
40	MYC	chr13:67209628-67209956	MCF10A-Er-Src	breast:	n/a	chr13:67209806-67209815
41	TCF12	chr13:67209443-67210196	SK-N-SH	brain:	n/a	n/a
42	CHD2	chr13:67209589-67210035	Hela-S3	cervix:	n/a	n/a
43	STAT3	chr13:67209707-67210058	MCF10A-Er-Src	breast:	n/a	chr13:67209807-67209816 chr13:67209890-67209899
44	CEBPB	chr13:67209643-67210073	Hela-S3	cervix:	n/a	n/a
45	JUND	chr13:67209557-67210077	Hela-S3	cervix:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209805-67209816 chr13:67209891-67209900
46	JUND	chr13:67209725-67209982	HepG2	liver:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209805-67209816 chr13:67209891-67209900
47	POLR2A	chr13:67209653-67209885	Hela-S3	cervix:	n/a	n/a
48	PBX3	chr13:67209523-67210068	SK-N-SH	brain:	n/a	n/a
49	FOS	chr13:67209404-67210505	MCF10A-Er-Src	breast:	n/a	chr13:67209891-67209898 chr13:67209806-67209816 chr13:67209805-67209817 chr13:67209806-67209816 chr13:67209803-67209814 chr13:67209807-67209816 chr13:67209806-67209816 chr13:67209806-67209816 chr13:67209889-67209900 chr13:67209891-67209900
50	RCOR1	chr13:67209451-67210681	IMR90	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:67204110..67206444-chr13:67209007..67211337,2	K562	blood:

Variant related genes	Relation type
RNU7-87P	TF binding region
ENSG00000238500	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1467590	0.83[YRI][hapmap];1.00[AMR][1000 genomes]
rs1555567	0.83[YRI][hapmap]
rs1932884	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs1932885	0.92[YRI][hapmap]
rs1932888	1.00[YRI][hapmap]
rs1932892	1.00[AMR][1000 genomes]
rs2057460	0.85[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2146740	1.00[YRI][hapmap]
rs2146742	0.83[YRI][hapmap];1.00[AMR][1000 genomes]
rs2146747	0.83[YRI][hapmap]
rs2224741	0.85[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2324911	1.00[AMR][1000 genomes]
rs2324916	1.00[AMR][1000 genomes]
rs2875479	1.00[AMR][1000 genomes]
rs4293259	1.00[AMR][1000 genomes]
rs4386018	1.00[AMR][1000 genomes]
rs4394963	0.92[YRI][hapmap];1.00[AMR][1000 genomes]
rs4427678	1.00[AMR][1000 genomes]
rs4883786	0.83[YRI][hapmap]
rs4884675	1.00[AMR][1000 genomes]
rs6562458	1.00[AMR][1000 genomes]
rs6562461	0.85[YRI][hapmap]
rs7981098	0.91[YRI][hapmap]
rs7985173	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs7988876	0.83[YRI][hapmap]
rs7992894	0.85[AFR][1000 genomes]
rs7992981	0.83[YRI][hapmap]
rs7994369	0.92[YRI][hapmap];1.00[AMR][1000 genomes]
rs9529078	1.00[AMR][1000 genomes]
rs9529080	1.00[AMR][1000 genomes]
rs9529101	0.85[YRI][hapmap]
rs9540773	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs9540777	1.00[AMR][1000 genomes]
rs9540783	1.00[AMR][1000 genomes]
rs9540811	1.00[AMR][1000 genomes]
rs9540855	0.89[YRI][hapmap]
rs9571591	1.00[AMR][1000 genomes]
rs976823	0.83[YRI][hapmap]
rs991011	0.83[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932195	chr13:66215786-67215733	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1052017	chr13:66232288-67213033	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv915828	chr13:66544825-67212201	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv1041133	chr13:66723731-67530595	Enhancers Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
5	esv2422196	chr13:67041890-67295480	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv832639	chr13:67049800-67223701	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv530605	chr13:67126136-67697306	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1041542	chr13:67166358-67341919	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv541816	chr13:67166358-67341919	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv1050518	chr13:67168310-67243724	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv1037517	chr13:67175615-67234029	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv562130	chr13:67200654-67306783	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:67208200-67210400	Enhancers	HSMM	muscle
2	chr13:67208400-67210000	Enhancers	HSMMtube	muscle
3	chr13:67208400-67210200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr13:67208400-67210200	Enhancers	Osteobl	bone
5	chr13:67208400-67210600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr13:67208600-67210600	Enhancers	Hela-S3	cervix
7	chr13:67208600-67210600	Enhancers	HUVEC	blood vessel
8	chr13:67209200-67210000	Enhancers	NHDF-Ad	bronchial
9	chr13:67209400-67210600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr13:67209400-67210600	Enhancers	A549	lung
11	chr13:67209600-67210000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr13:67209600-67210200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr13:67209600-67212400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr13:67209800-67210000	Enhancers	Muscle Satellite Cultured Cells	--
15	chr13:67209800-67210000	Enhancers	Brain Anterior Caudate	brain
16	chr13:67209800-67210000	Enhancers	Brain Substantia Nigra	brain
17	chr13:67209800-67210400	Enhancers	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links