Variant report

Variant	rs34979768
Chromosome Location	chr21:46079359-46079360
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	STAT3	chr21:46079256-46079533	MCF10A-Er-Src	breast:	n/a	chr21:46079428-46079439
2	STAT3	chr21:46079334-46079447	MCF10A-Er-Src	breast:	n/a	chr21:46079428-46079439
3	FOS	chr21:46079257-46079540	MCF10A-Er-Src	breast:	n/a	n/a
4	FOS	chr21:46079257-46079400	MCF10A-Er-Src	breast:	n/a	n/a
5	FOS	chr21:46079262-46079456	MCF10A-Er-Src	breast:	n/a	n/a
6	FOS	chr21:46079246-46079474	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr21:46072438..46074789-chr21:46078959..46080577,2	MCF-7	breast:

Variant related genes	Relation type
KRTAP12-4	TF binding region
ENSG00000212933	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10854463	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11701054	0.83[AFR][1000 genomes]
rs12106369	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12482870	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1883039	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1883041	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2073437	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2210284	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2225433	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2256361	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2256490	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2256496	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2329837	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2329838	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2329839	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2329840	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2329841	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2329842	0.91[ASN][1000 genomes]
rs2329843	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2838601	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2838602	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2838610	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2838611	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2838614	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2838617	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2838618	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2838619	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2838623	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2838624	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2838625	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2838627	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3944594	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3966427	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4818728	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4818947	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4818952	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4818953	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs68065001	0.86[AFR][1000 genomes]
rs7275203	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7275666	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7276421	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7277758	0.96[ASN][1000 genomes]
rs7280471	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7282421	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs762431	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs762433	0.91[EUR][1000 genomes]
rs8126553	0.81[AMR][1000 genomes]
rs8132337	0.82[AMR][1000 genomes]
rs926193	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9306111	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9306112	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9974195	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9983049	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9983892	0.86[ASN][1000 genomes]
rs9984726	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][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	nsv1065798	chr21:45941000-46097463	Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv869108	chr21:45941000-46097463	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv544476	chr21:45941000-46097463	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv913950	chr21:45985068-46097463	Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv916258	chr21:45995986-46624705	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	102 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:46073600-46079800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
2	chr21:46073600-46080200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
3	chr21:46076800-46080000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr21:46077000-46079400	Enhancers	Dnd41	blood
5	chr21:46077200-46080400	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr21:46077400-46080200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr21:46077800-46080200	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr21:46078000-46079400	Bivalent Enhancer	Adipose Nuclei	Adipose
9	chr21:46078200-46079400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr21:46078200-46079600	Enhancers	Primary T cells from cord blood	blood
11	chr21:46078200-46079800	Enhancers	Primary T cells fromperipheralblood	blood
12	chr21:46078200-46081600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr21:46078400-46080000	Enhancers	H1 Cell Line	embryonic stem cell
14	chr21:46078400-46080200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
15	chr21:46078400-46080800	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr21:46078600-46080400	Enhancers	HUES64 Cell Line	embryonic stem cell
17	chr21:46078600-46080600	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr21:46078800-46079400	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr21:46078800-46079400	Enhancers	H9 Cell Line	embryonic stem cell
20	chr21:46078800-46079400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr21:46078800-46079400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
22	chr21:46078800-46080000	Enhancers	HUES48 Cell Line	embryonic stem cell
23	chr21:46078800-46080000	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr21:46078800-46080200	Enhancers	Primary T helper naive cells from peripheral blood	blood
25	chr21:46078800-46080400	Enhancers	iPS-20b Cell Line	embryonic stem cell
26	chr21:46079200-46079600	Enhancers	Primary T killer memory cells from peripheral blood	blood
27	chr21:46079200-46080200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
28	chr21:46079200-46086600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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