Variant report

Variant	rs3982408
Chromosome Location	chr1:168515645-168515646
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	CEBPD	chr1:168515163-168515685	K562	blood:	n/a	n/a
2	CEBPB	chr1:168515308-168515718	HCT-116	colon:	n/a	chr1:168515444-168515455
3	CTCF	chr1:168515219-168515706	A549	lung:	n/a	n/a
4	CEBPB	chr1:168515329-168515733	A549	lung:	n/a	chr1:168515444-168515455
5	TEAD4	chr1:168515098-168515691	HepG2	liver:	n/a	n/a
6	CEBPB	chr1:168515312-168515653	MCF-7	breast:	n/a	chr1:168515444-168515455
7	CEBPB	chr1:168515231-168515649	Hela-S3	cervix:	n/a	chr1:168515444-168515455
8	RAD21	chr1:168515226-168515681	SK-N-SH	brain:	n/a	n/a
9	CEBPB	chr1:168515239-168515646	K562	blood:	n/a	chr1:168515444-168515455
10	CEBPB	chr1:168515335-168515709	MCF-7	breast:	n/a	chr1:168515444-168515455
11	CTCF	chr1:168515294-168515699	SK-N-SH	brain:	n/a	n/a
12	CEBPB	chr1:168515198-168515676	K562	blood:	n/a	chr1:168515444-168515455
13	CEBPD	chr1:168515354-168515650	K562	blood:	n/a	n/a

Variant related genes	Relation type
XCL2	TF binding region

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1024176	0.86[ASN][1000 genomes]
rs1024177	0.86[ASN][1000 genomes]
rs10918924	0.87[ASN][1000 genomes]
rs10918925	0.86[ASN][1000 genomes]
rs10918926	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1123864	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12021763	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12046909	0.81[ASN][1000 genomes]
rs12049040	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12409982	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12568619	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1933100	0.85[ASN][1000 genomes]
rs1933104	0.86[ASN][1000 genomes]
rs1933105	0.86[ASN][1000 genomes]
rs1933109	0.86[ASN][1000 genomes]
rs1933110	0.86[ASN][1000 genomes]
rs1933112	0.87[ASN][1000 genomes]
rs1933114	0.91[ASN][1000 genomes]
rs1998510	0.82[ASN][1000 genomes]
rs2179500	0.87[ASN][1000 genomes]
rs2223583	0.86[ASN][1000 genomes]
rs34328291	0.97[ASN][1000 genomes]
rs3820405	0.90[ASN][1000 genomes]
rs3820411	0.90[ASN][1000 genomes]
rs3982407	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4656599	0.82[ASN][1000 genomes]
rs4656601	0.81[ASN][1000 genomes]
rs4656605	0.86[ASN][1000 genomes]
rs475361	0.96[ASN][1000 genomes]
rs7514168	0.86[ASN][1000 genomes]
rs7516427	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7518740	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7518803	0.91[ASN][1000 genomes]
rs7543171	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014626	chr1:168441288-168642731	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv535196	chr1:168441288-168642731	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1011821	chr1:168441488-168642592	Active TSS Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv535197	chr1:168441488-168642592	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv1008852	chr1:168449940-168643905	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
6	nsv535198	chr1:168449940-168643905	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
7	nsv1007846	chr1:168449940-168687265	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv869415	chr1:168467284-169153863	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 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	chr1:168514800-168516000	Enhancers	Liver	Liver

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