Variant report

Variant	rs2725820
Chromosome Location	chr11:77013808-77013809
allele	A/G
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	TEAD4	chr11:77013757-77014165	K562	blood:	n/a	n/a
2	TEAD4	chr11:77013707-77014247	K562	blood:	n/a	n/a
3	GATA1	chr11:77013672-77014336	K562	blood:	n/a	n/a
4	EP300	chr11:77013667-77014496	SK-N-SH	brain:	n/a	n/a
5	ARID3A	chr11:77013780-77014029	HepG2	liver:	n/a	n/a
6	MAFK	chr11:77013673-77013886	HepG2	liver:	n/a	n/a
7	RCOR1	chr11:77013760-77014234	K562	blood:	n/a	n/a
8	HNF4A	chr11:77013801-77014002	HepG2	liver:	n/a	n/a
9	FOXA1	chr11:77013727-77014058	HepG2	liver:	n/a	chr11:77013888-77013900
10	FOXA2	chr11:77013781-77013994	HepG2	liver:	n/a	chr11:77013888-77013900
11	EP300	chr11:77013806-77014233	K562	blood:	n/a	n/a
12	NR2F2	chr11:77013799-77014134	K562	blood:	n/a	n/a
13	MAFK	chr11:77013717-77014265	HepG2	liver:	n/a	n/a
14	TRIM28	chr11:77013782-77014178	K562	blood:	n/a	n/a
15	TAL1	chr11:77013797-77014210	K562	blood:	n/a	n/a
16	HNF4A	chr11:77013749-77014017	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:77013216..77015295-chr11:77050036..77051707,2	MCF-7	breast:
2	chr11:76974672..76976912-chr11:77012881..77014852,2	K562	blood:

Variant related genes	Relation type
GDPD4	TF binding region

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs11237123	1.00[JPT][hapmap]
rs11237141	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11237142	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11237148	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11237150	1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11237151	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11237160	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11237162	0.98[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11237164	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1125619	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1225478	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12361757	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12363707	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12363842	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12363944	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12366261	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1237490	0.81[EUR][1000 genomes]
rs12794253	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1377472	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1597954	0.98[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1622364	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1670446	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1670449	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1670450	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1670456	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1670458	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1670461	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1670462	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17824184	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1793468	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1793471	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1793472	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1793487	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1793490	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2156567	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2602476	0.84[ASN][1000 genomes]
rs2602483	0.98[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2602487	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2725822	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2725825	0.98[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2725828	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3015985	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3015988	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3015992	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs34880271	0.96[ASN][1000 genomes]
rs4375461	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs472691	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs479104	0.84[ASN][1000 genomes]
rs493256	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs494289	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4945150	1.00[JPT][hapmap]
rs508662	0.92[ASN][1000 genomes]
rs51500	0.96[ASN][1000 genomes]
rs522015	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs523481	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs535008	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs552323	0.96[ASN][1000 genomes]
rs557484	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs558470	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs560571	0.84[ASN][1000 genomes]
rs561386	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs562845	0.92[ASN][1000 genomes]
rs563731	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs572485	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs576220	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs580624	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs592602	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs598801	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs644551	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs649040	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs653792	0.96[ASN][1000 genomes]
rs66518011	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs66540426	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs66728428	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs674259	0.96[ASN][1000 genomes]
rs683455	0.84[ASN][1000 genomes]
rs683762	0.96[ASN][1000 genomes]
rs684793	0.84[ASN][1000 genomes]
rs686068	1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs689108	0.84[ASN][1000 genomes]
rs7118943	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7934230	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs883224	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs883680	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534515	chr11:76900813-77035769	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv1048360	chr11:76900813-77387933	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv541089	chr11:76900813-77387933	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv1049603	chr11:76900813-77520411	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv541090	chr11:76900813-77520411	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	esv3424135	chr11:76961603-77277087	Strong transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:77013600-77014600	Enhancers	HepG2	liver
2	chr11:77013800-77014000	Enhancers	Liver	Liver
3	chr11:77013800-77015200	Enhancers	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links