Variant report

Variant	rs73132656
Chromosome Location	chr5:93904955-93904956
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	SIX5	chr5:93904568-93905472	GM12878	blood:	n/a	chr5:93905043-93905059
2	TAF1	chr5:93904738-93905385	GM12878	blood:	n/a	n/a
3	POLR2A	chr5:93904885-93905323	Hela-S3	cervix:	n/a	n/a
4	FOXM1	chr5:93904784-93905522	GM12878	blood:	n/a	n/a
5	SIX5	chr5:93904920-93905360	K562	blood:	n/a	chr5:93905043-93905059
6	BCL11A	chr5:93904917-93905385	GM12878	blood:	n/a	n/a
7	TAF1	chr5:93904854-93904980	Hela-S3	cervix:	n/a	n/a
8	PAX5	chr5:93904543-93905744	GM12878	blood:	n/a	n/a
9	GATA2	chr5:93904916-93905425	K562	blood:	n/a	n/a
10	RXRA	chr5:93904503-93905504	GM12878	blood:	n/a	n/a
11	SP1	chr5:93904824-93905407	GM12878	blood:	n/a	n/a
12	CEBPD	chr5:93904908-93905441	K562	blood:	n/a	n/a
13	ZBTB33	chr5:93904493-93905410	GM12878	blood:	n/a	n/a
14	HEY1	chr5:93904826-93905426	HepG2	liver:	n/a	n/a
15	SIX5	chr5:93904917-93905299	K562	blood:	n/a	chr5:93905043-93905059
16	HEY1	chr5:93904923-93905288	K562	blood:	n/a	n/a
17	IRF4	chr5:93904804-93905505	GM12878	blood:	n/a	n/a
18	ZBTB33	chr5:93904857-93905446	HepG2	liver:	n/a	n/a
19	ZBTB33	chr5:93904824-93905300	K562	blood:	n/a	n/a
20	IRF4	chr5:93904810-93905420	GM12878	blood:	n/a	n/a
21	REST	chr5:93904874-93905308	HepG2	liver:	n/a	n/a
22	POU2F2	chr5:93904554-93905475	GM12878	blood:	n/a	chr5:93904667-93904678
23	FOXA1	chr5:93904812-93905328	HepG2	liver:	n/a	n/a
24	TCF12	chr5:93904920-93905387	GM12878	blood:	n/a	n/a
25	TCF12	chr5:93904831-93904992	HepG2	liver:	n/a	n/a
26	HEY1	chr5:93904854-93904970	HepG2	liver:	n/a	n/a
27	SPI1	chr5:93904737-93905389	GM12878	blood:	n/a	n/a
28	PBX3	chr5:93904826-93904970	GM12878	blood:	n/a	n/a
29	JUND	chr5:93904866-93904966	HepG2	liver:	n/a	n/a
30	FOSL2	chr5:93904551-93905333	HepG2	liver:	n/a	n/a
31	ZBTB33	chr5:93904914-93905292	K562	blood:	n/a	n/a
32	EP300	chr5:93904818-93905448	GM12878	blood:	n/a	n/a
33	SIN3AK20	chr5:93904846-93905290	HepG2	liver:	n/a	n/a
34	BATF	chr5:93904917-93905390	GM12878	blood:	n/a	n/a
35	SP1	chr5:93904568-93905466	GM12878	blood:	n/a	chr5:93904777-93904786 chr5:93904776-93904788 chr5:93904776-93904788 chr5:93904778-93904787
36	PAX5	chr5:93904916-93905413	GM12878	blood:	n/a	n/a
37	MYBL2	chr5:93904800-93905346	HepG2	liver:	n/a	n/a
38	RXRA	chr5:93904739-93905348	HepG2	liver:	n/a	n/a
39	ZBTB33	chr5:93904862-93904964	HepG2	liver:	n/a	n/a
40	RXRA	chr5:93904918-93905297	HepG2	liver:	n/a	n/a
41	ZBTB33	chr5:93904632-93905422	GM12878	blood:	n/a	n/a
42	SP1	chr5:93904574-93905420	HepG2	liver:	n/a	chr5:93904777-93904786 chr5:93904776-93904788 chr5:93904776-93904788 chr5:93904778-93904787
43	BHLHE40	chr5:93904828-93905314	HepG2	liver:	n/a	n/a
44	TAF1	chr5:93904842-93904990	Hela-S3	cervix:	n/a	n/a
45	BCL11A	chr5:93904555-93905402	GM12878	blood:	n/a	n/a
46	BATF	chr5:93904840-93904991	GM12878	blood:	n/a	n/a
47	NFIC	chr5:93904862-93905508	GM12878	blood:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MCTP1-2	chr5:93904634-93905175	NONHSAT102821

Variant related genes	Relation type
ENSG00000251340	TF binding region

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1549180	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17327757	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17328137	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17328296	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17328331	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17328400	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17328434	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17328525	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17328588	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17328637	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17387486	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2029910	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2173020	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56730205	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56813337	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs57412880	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58306231	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58408645	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59077119	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60307858	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61141017	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61427096	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6898151	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73132666	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73132677	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73132681	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73132682	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73132683	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73132688	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73132692	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73132693	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73132701	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73134674	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73134681	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73134683	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73134687	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73134693	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73134696	0.84[EUR][1000 genomes]
rs73140270	0.81[EUR][1000 genomes]
rs73140284	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73140285	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73144155	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73144170	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73144175	0.92[EUR][1000 genomes]
rs73144177	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73144193	0.82[EUR][1000 genomes]
rs73145094	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73150143	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:26 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023191	chr5:93351646-93947928	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv537808	chr5:93351646-93947928	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv1023421	chr5:93679661-93911066	Flanking Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Weak transcription Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	esv2758002	chr5:93765205-94042201	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
5	esv2759354	chr5:93765205-94042201	Active TSS ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
6	nsv534495	chr5:93789736-93962131	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
7	nsv598952	chr5:93823951-93956986	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
8	nsv964906	chr5:93899345-93909772	Enhancers Weak transcription ZNF genes & repeats	TF binding region CpG island lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv823135	chr5:93901695-93907012	Weak transcription ZNF genes & repeats	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv10715	chr5:93901950-93908462	Enhancers Weak transcription ZNF genes & repeats	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv823136	chr5:93902940-93906274	ZNF genes & repeats Weak transcription	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	diseases
12	esv1821190	chr5:93902940-93906281	Weak transcription ZNF genes & repeats	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	diseases
13	nsv820630	chr5:93902940-93906461	Weak transcription ZNF genes & repeats	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	diseases
14	esv1819794	chr5:93903140-93906081	ZNF genes & repeats Weak transcription	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	diseases
15	esv1793413	chr5:93903140-93906557	Weak transcription ZNF genes & repeats	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	diseases
16	nsv823137	chr5:93903192-93906274	ZNF genes & repeats Weak transcription	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
17	nsv819118	chr5:93903275-93908543	Weak transcription Enhancers ZNF genes & repeats	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
18	esv1802027	chr5:93903286-93906281	ZNF genes & repeats Weak transcription	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
19	esv1843678	chr5:93903286-93906281	Weak transcription ZNF genes & repeats	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
20	esv15901	chr5:93903386-93907012	Weak transcription ZNF genes & repeats	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
21	esv1814984	chr5:93903575-93906281	Weak transcription ZNF genes & repeats	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
22	esv1823371	chr5:93903575-93906281	ZNF genes & repeats Weak transcription	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
23	nsv823138	chr5:93903772-93906274	ZNF genes & repeats Weak transcription	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
24	nsv823139	chr5:93903980-93906274	ZNF genes & repeats Weak transcription	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
25	nsv823140	chr5:93904623-93905770	ZNF genes & repeats Weak transcription	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
26	nsv823141	chr5:93904623-93906274	ZNF genes & repeats Weak transcription	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:93903000-93919800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr5:93904200-93908800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links