Variant report

Variant	rs28459903
Chromosome Location	chr15:41487546-41487547
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:34)
CpG islands
(count:0)
Chromatin interactive
region (count:0)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:34 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr15:41487460-41487610	GM12875	blood:	n/a	n/a
2	CTCF	chr15:41487460-41487710	HepG2	liver:	n/a	n/a
3	CTCF	chr15:41487440-41487590	HPAF	blood vessel:	n/a	n/a
4	CTCF	chr15:41487420-41487710	HCPEpiC	choroid plexus:	n/a	n/a
5	CTCF	chr15:41487420-41487570	GM12871	blood:	n/a	n/a
6	CTCF	chr15:41487440-41487590	BJ	skin:	n/a	n/a
7	CTCF	chr15:41487520-41487670	GM12865	blood:	n/a	n/a
8	CTCF	chr15:41487450-41487551	K562	blood:	n/a	n/a
9	CTCF	chr15:41487440-41487590	HPF	lung:	n/a	n/a
10	CTCF	chr15:41487420-41487570	Hela-S3	cervix:	n/a	n/a
11	CTCF	chr15:41487400-41487550	GM12874	blood:	n/a	n/a
12	CTCF	chr15:41487400-41487550	HCFaa	heart:	n/a	n/a
13	CTCF	chr15:41487400-41487550	HepG2	liver:	n/a	n/a
14	POLR2A	chr15:41486861-41487752	K562	blood:	n/a	n/a
15	CTCF	chr15:41487480-41487630	K562	blood:	n/a	n/a
16	CTCF	chr15:41487480-41487630	WI-38	lung:	n/a	n/a
17	CTCF	chr15:41487440-41487590	GM12871	blood:	n/a	n/a
18	CTCF	chr15:41487460-41487610	GM12873	blood:	n/a	n/a
19	CTCF	chr15:41487480-41487630	AoAF	blood vessel:	n/a	n/a
20	CTCF	chr15:41487480-41487730	GM06990	blood:	n/a	n/a
21	CTCF	chr15:41487420-41487570	HBMEC	blood vessel:	n/a	n/a
22	CTCF	chr15:41487420-41487570	MCF-7	breast:	n/a	n/a
23	CTCF	chr15:41487500-41487650	HAc	cerebellar:	n/a	n/a
24	CTCF	chr15:41487424-41487560	Hela-S3	cervix:	n/a	n/a
25	CTCF	chr15:41487400-41487550	GM12870	blood:	n/a	n/a
26	CTCF	chr15:41487460-41487610	GM12864	blood:	n/a	n/a
27	CTCF	chr15:41487400-41487550	GM12865	blood:	n/a	n/a
28	CTCF	chr15:41487440-41487690	RPTEC	kidney:	n/a	n/a
29	CTCF	chr15:41487500-41487650	HPAF	blood vessel:	n/a	n/a
30	CTCF	chr15:41487400-41487550	GM12872	blood:	n/a	n/a
31	CTCF	chr15:41487460-41487610	AG04450	lung:	n/a	n/a
32	CTCF	chr15:41487400-41487550	HUVEC	blood vessel:	n/a	n/a
33	CTCF	chr15:41487400-41487550	A549	lung:	n/a	n/a
34	CTCF	chr15:41487460-41487610	AG09309	skin:	n/a	n/a

No data

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AC012652.1.1-5	chr15:41485541-41487747	predAs_engstrom06_AA043058_1

No data

Variant related genes	Relation type
EXD1	TF binding region
RN7SL497P	TF binding region

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10152631	0.81[AFR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11070323	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11857726	0.83[ASN][1000 genomes]
rs17718117	0.82[EUR][1000 genomes]
rs28510224	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28523607	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57126801	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58330134	0.92[EUR][1000 genomes]
rs58547976	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58677271	0.82[EUR][1000 genomes]
rs58819307	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59926382	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61592157	0.85[AFR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs66520648	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs66663059	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs66723852	0.81[ASN][1000 genomes]
rs66993182	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67259166	0.83[EUR][1000 genomes]
rs67891871	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs68180828	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7166556	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7178739	0.81[AFR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73396323	0.94[EUR][1000 genomes]
rs73402954	0.82[AFR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904107	chr15:41361138-41493013	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
2	nsv457120	chr15:41410705-41546631	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv569231	chr15:41410705-41546631	Weak transcription ZNF genes & repeats Active TSS Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv1039906	chr15:41476209-41518976	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41484400-41494400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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