Variant report

Variant	rs1721425
Chromosome Location	chr7:109240101-109240102
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	RAD21	chr7:109239616-109240157	MCF-7	breast:	n/a	n/a
2	HDAC2	chr7:109239714-109240188	MCF-7	breast:	n/a	n/a
3	GATA3	chr7:109239526-109240455	MCF-7	breast:	n/a	n/a
4	GATA3	chr7:109239606-109240297	MCF-7	breast:	n/a	n/a
5	NR2F2	chr7:109239653-109240284	MCF-7	breast:	n/a	n/a
6	GATA3	chr7:109239740-109240139	T-47D	breast:	n/a	n/a
7	GATA3	chr7:109239671-109240141	T-47D	breast:	n/a	n/a
8	FOXM1	chr7:109239586-109240258	MCF-7	breast:	n/a	n/a
9	NR2F2	chr7:109239615-109240353	MCF-7	breast:	n/a	n/a
10	FOXA1	chr7:109239498-109240169	T-47D	breast:	n/a	n/a
11	ESR1	chr7:109239762-109240147	T-47D	breast:	n/a	n/a
12	SIN3AK20	chr7:109239533-109240227	MCF-7	breast:	n/a	n/a

Variant related genes	Relation type
ENSG00000234273	TF binding region

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10264734	0.97[ASN][1000 genomes]
rs12537605	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12540076	0.95[ASN][1000 genomes]
rs1357690	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1405065	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1464743	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1524280	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1568778	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1626408	0.80[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1721418	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1721420	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1721422	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1721424	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1721426	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1721428	0.83[ASN][1000 genomes]
rs1721431	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1721452	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1721454	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1721456	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1721925	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1721934	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1721936	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1721938	0.89[ASW][hapmap];1.00[CEU][hapmap];0.93[CHD][hapmap];0.94[GIH][hapmap];0.84[JPT][hapmap];0.80[LWK][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1721941	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1721945	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1721946	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1721950	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1721951	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1721953	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1916913	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2250798	0.88[ASN][1000 genomes]
rs2396136	0.98[ASN][1000 genomes]
rs2396137	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2690352	0.89[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2690360	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2690372	0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2690376	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4730395	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6949142	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7797247	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023379	chr7:109003574-109355234	Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv608079	chr7:109098364-109862289	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1020761	chr7:109208187-109275700	Weak transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1017184	chr7:109240101-109350011	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:109237400-109240400	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr7:109238400-109240600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr7:109238600-109240600	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr7:109238600-109241400	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr7:109239200-109241400	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr7:109239600-109240800	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr7:109239600-109241200	Enhancers	Dnd41	blood
8	chr7:109240000-109240600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr7:109240000-109243800	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr7:109240000-109245000	Weak transcription	HUES6 Cell Line	embryonic stem cell

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