Variant report

Variant	rs35102843
Chromosome Location	chr15:38988107-38988108
allele	A/C
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	NFIC	chr15:38987484-38988160	GM12878	blood:	n/a	n/a
2	POLR2A	chr15:38988105-38988887	GM12892	blood:	n/a	n/a
3	POLR2A	chr15:38987602-38989220	GM19193	blood:	n/a	n/a
4	GATA2	chr15:38987204-38988519	SH-SY5Y	brain:	n/a	n/a
5	EP300	chr15:38987805-38988478	SK-N-SH_RA	brain:	n/a	n/a
6	TCF12	chr15:38987459-38988532	SK-N-SH	brain:	n/a	chr15:38988146-38988153
7	RELA	chr15:38987610-38989052	GM19193	blood:	n/a	n/a
8	IKZF1	chr15:38987806-38988133	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:38855702..38858314-chr15:38985984..38988881,2	MCF-7	breast:

Variant related genes	Relation type
C15orf53	TF binding region
ENSG00000172575	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs12148859	0.83[ASN][1000 genomes]
rs12898460	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12899449	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12901215	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12903120	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12912251	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12916379	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2132157	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2172835	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34141940	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34281605	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34356257	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35024396	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35795311	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs36094159	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71403553	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7163869	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7165988	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7171233	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7177621	0.89[EUR][1000 genomes]
rs7183893	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949171	chr15:38232548-39033746	Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv1046994	chr15:38806163-39239014	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv525770	chr15:38816833-39084956	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv1054651	chr15:38827825-39082844	Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv542358	chr15:38827825-39082844	Bivalent/Poised TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:38978800-38990800	Weak transcription	Right Atrium	heart
2	chr15:38984400-38988200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr15:38984600-38988200	Weak transcription	Primary T cells from cord blood	blood
4	chr15:38984800-38988200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr15:38984800-38988400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr15:38985400-38988200	Weak transcription	Left Ventricle	heart
7	chr15:38985800-38988400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
8	chr15:38986200-38988400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
9	chr15:38986200-38988800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr15:38986600-38992600	Enhancers	Primary T helper cells fromperipheralblood	blood
11	chr15:38986600-38992600	Enhancers	Primary T killer memory cells from peripheral blood	blood
12	chr15:38986800-38989200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
13	chr15:38986800-38992400	Enhancers	Primary T helper naive cells from peripheral blood	blood
14	chr15:38986800-38992600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr15:38987000-38992000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr15:38987200-38988800	Enhancers	Primary T cells fromperipheralblood	blood
17	chr15:38987200-38989200	Enhancers	GM12878-XiMat	blood
18	chr15:38987200-38989400	Enhancers	Fetal Heart	heart
19	chr15:38987200-38991800	Enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr15:38987200-38992000	Enhancers	Primary hematopoietic stem cells	blood
21	chr15:38987200-38992400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
22	chr15:38987200-38992600	Enhancers	Primary T helper cells PMA-I stimulated	--
23	chr15:38987600-38988800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
24	chr15:38987800-38988200	Enhancers	Fetal Stomach	stomach
25	chr15:38987800-38991400	Enhancers	Dnd41	blood
26	chr15:38987800-38991800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
27	chr15:38987800-38991800	Enhancers	Fetal Thymus	thymus
28	chr15:38988000-38988800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr15:38988000-38989000	Enhancers	Placenta	Placenta
30	chr15:38988000-38989000	Enhancers	Thymus	Thymus
31	chr15:38988000-38989400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr15:38988000-38989400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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