Variant report

Variant	rs35722267
Chromosome Location	chr15:56363579-56363580
allele	C/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	POLR2A	chr15:56363439-56363806	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr15:56363305-56363816	MCF-7	breast:	n/a	n/a
3	POLR2A	chr15:56363530-56363689	GM12878	blood:	n/a	n/a
4	TAF1	chr15:56363423-56363766	H1-hESC	embryonic stem cell:	n/a	n/a
5	POLR2A	chr15:56363543-56363709	A549	lung:	n/a	n/a
6	POLR2A	chr15:56363513-56363685	A549	lung:	n/a	n/a
7	POLR2A	chr15:56363576-56363715	H1-hESC	embryonic stem cell:	n/a	n/a
8	POLR2A	chr15:56363377-56363730	MCF-7	breast:	n/a	n/a
9	TAF1	chr15:56363479-56363756	H1-hESC	embryonic stem cell:	n/a	n/a
10	MYC	chr15:56363510-56363785	MCF-7	breast:	n/a	chr15:56363542-56363552
11	POLR2A	chr15:56363556-56363733	H1-hESC	embryonic stem cell:	n/a	n/a
12	POLR2A	chr15:56363574-56363675	A549	lung:	n/a	n/a
13	MYC	chr15:56363558-56363674	MCF-7	breast:	n/a	n/a
14	POLR2A	chr15:56363302-56363783	MCF-7	breast:	n/a	n/a
15	CCNT2	chr15:56363485-56363774	K562	blood:	n/a	n/a
16	POLR2A	chr15:56363493-56363682	MCF10A-Er-Src	breast:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RFX7-2	chr15:56363458-56363839	l_1162_chr15:56293600-56416163_liver

Variant related genes	Relation type
CD24P2	TF binding region

Extended variants
information (count: 49 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs11629483	0.82[EUR][1000 genomes]
rs11631191	0.82[EUR][1000 genomes]
rs12905899	0.89[EUR][1000 genomes]
rs12907263	0.91[EUR][1000 genomes]
rs12911094	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12911427	0.86[EUR][1000 genomes]
rs12914260	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1372753	0.87[EUR][1000 genomes]
rs1442640	0.93[EUR][1000 genomes]
rs2119937	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34044869	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34144128	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34224072	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34386737	0.92[EUR][1000 genomes]
rs34777702	0.97[ASN][1000 genomes]
rs34979470	0.97[ASN][1000 genomes]
rs35082998	0.90[EUR][1000 genomes]
rs35749329	0.82[EUR][1000 genomes]
rs35972806	0.87[EUR][1000 genomes]
rs4310791	0.84[EUR][1000 genomes]
rs4310792	0.84[EUR][1000 genomes]
rs4774231	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4774232	0.93[EUR][1000 genomes]
rs4774847	0.88[EUR][1000 genomes]
rs59432349	0.82[EUR][1000 genomes]
rs62044082	0.84[EUR][1000 genomes]
rs62044110	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62044111	0.88[EUR][1000 genomes]
rs6493835	0.92[EUR][1000 genomes]
rs7165270	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7168319	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7174823	0.81[EUR][1000 genomes]
rs7175745	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7179706	0.89[ASN][1000 genomes]
rs7183363	0.87[ASN][1000 genomes]
rs7496025	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8024031	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs8028353	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8029114	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs8032242	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8033653	0.89[EUR][1000 genomes]
rs9672886	0.84[EUR][1000 genomes]
rs9672928	0.87[EUR][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	esv2761872	chr15:56211065-56426501	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv833018	chr15:56325799-56492535	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1045906	chr15:56333180-56473614	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	esv3312198	chr15:56362260-56367158	Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	n/a
5	nsv522888	chr15:56362968-56369124	Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region lncRNA	1 gene(s)	inside rSNPs	n/a
6	esv3414428	chr15:56363060-56366358	Weak transcription Active TSS Enhancers ZNF genes & repeats	TF binding region lncRNA	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs35722267	RFX7	cis	Adipose Subcutaneous	GTEx
rs35722267	RFX7	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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