Variant report

Variant	rs4387040
Chromosome Location	chr9:108721093-108721094
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:108669187..108678029-chr9:108711816..108723206,29	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10733558	0.80[ASN][1000 genomes]
rs10759156	0.80[ASN][1000 genomes]
rs10816354	0.85[ASN][1000 genomes]
rs10816356	1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[ASN][1000 genomes]
rs10978344	0.95[ASN][1000 genomes]
rs10978345	0.95[ASN][1000 genomes]
rs10978346	0.95[ASN][1000 genomes]
rs10978362	0.80[ASN][1000 genomes]
rs1984676	0.88[ASN][1000 genomes]
rs2417669	0.90[ASN][1000 genomes]
rs2417670	0.95[ASN][1000 genomes]
rs2417677	0.81[ASN][1000 genomes]
rs2417678	0.87[CHB][hapmap]
rs2900407	0.86[ASN][1000 genomes]
rs4076012	0.87[CHB][hapmap];0.87[CHD][hapmap]
rs4609252	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs4742659	0.88[ASN][1000 genomes]
rs55721325	0.87[ASN][1000 genomes]
rs55735471	0.87[ASN][1000 genomes]
rs7865804	0.91[ASN][1000 genomes]
rs7866652	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893694	chr9:108486533-108854018	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv1041073	chr9:108535813-108731343	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv1052684	chr9:108582944-108730280	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv615140	chr9:108592589-108725567	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv831679	chr9:108603112-108785347	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1047166	chr9:108693810-108921872	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108717200-108721400	Enhancers	HUES64 Cell Line	embryonic stem cell
2	chr9:108718200-108721800	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr9:108718400-108721600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr9:108719400-108721600	Enhancers	ES-I3 Cell Line	embryonic stem cell
5	chr9:108719800-108721400	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr9:108720000-108721600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr9:108720000-108722400	Enhancers	Fetal Kidney	kidney
8	chr9:108720200-108725600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr9:108720400-108722000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr9:108720400-108725200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr9:108720600-108721600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr9:108720600-108725800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr9:108720600-108731200	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr9:108721000-108721400	Enhancers	Liver	Liver
15	chr9:108721000-108721600	Enhancers	Brain Hippocampus Middle	brain

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