Variant report

Variant	rs72605685
Chromosome Location	chr9:12973707-12973708
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	FOS	chr9:12973703-12974047	MCF10A-Er-Src	breast:	n/a	n/a
2	FOS	chr9:12973705-12974053	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
TDPX2	TF binding region

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10118055	0.83[ASN][1000 genomes]
rs10756436	0.82[ASN][1000 genomes]
rs1332068	0.83[ASN][1000 genomes]
rs1332079	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1412305	0.95[ASN][1000 genomes]
rs1536792	0.93[ASN][1000 genomes]
rs7021152	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[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	nsv498136	chr9:12387840-12984158	Genic enhancers Enhancers Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	esv2422212	chr9:12448789-13127738	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv613616	chr9:12922330-13018096	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv892576	chr9:12925921-13093345	Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv892577	chr9:12928475-12995112	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv917331	chr9:12941193-13146852	Weak transcription Genic enhancers Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv892578	chr9:12942956-13485035	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv892579	chr9:12954161-13120380	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:12962400-12983800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr9:12971400-12974200	Enhancers	Rectal Smooth Muscle	rectum
3	chr9:12971800-12974200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr9:12971800-12975000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr9:12972000-12974000	Enhancers	Liver	Liver
6	chr9:12972200-12975000	Enhancers	Colon Smooth Muscle	Colon
7	chr9:12972600-12974000	Enhancers	HSMMtube	muscle
8	chr9:12972600-12974200	Enhancers	Fetal Heart	heart
9	chr9:12972600-12975000	Enhancers	Fetal Stomach	stomach
10	chr9:12972600-12975800	Enhancers	HSMM	muscle
11	chr9:12972800-12974000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr9:12972800-12974000	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr9:12972800-12975000	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr9:12972800-12975800	Enhancers	Fetal Lung	lung
15	chr9:12973400-12974400	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr9:12973600-12974000	Enhancers	Stomach Mucosa	stomach
17	chr9:12973600-12974200	Enhancers	Dnd41	blood
18	chr9:12973600-12974600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr9:12973600-12975800	Enhancers	Stomach Smooth Muscle	stomach
20	chr9:12973600-12982000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links