Variant report

Variant	rs7020393
Chromosome Location	chr9:99964351-99964352
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	POLR2A	chr9:99963946-99964361	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
ZNF322P1	TF binding region
ENSG00000242375	TF binding region

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10122063	0.91[JPT][hapmap]
rs10125198	0.86[JPT][hapmap]
rs10435868	0.91[JPT][hapmap]
rs10448274	0.91[JPT][hapmap]
rs10981209	0.80[ASN][1000 genomes]
rs10981280	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs10981288	0.91[JPT][hapmap]
rs10981329	0.91[JPT][hapmap]
rs10981890	0.82[JPT][hapmap]
rs11581	0.87[CHB][hapmap];0.95[JPT][hapmap]
rs11791310	0.91[JPT][hapmap]
rs12235734	0.80[ASN][1000 genomes]
rs13298346	0.91[JPT][hapmap]
rs13299627	0.91[JPT][hapmap]
rs1544203	0.86[JPT][hapmap]
rs1903635	0.85[CHB][hapmap];0.80[JPT][hapmap]
rs1947717	0.85[JPT][hapmap]
rs2169456	0.91[JPT][hapmap]
rs2219664	0.91[JPT][hapmap]
rs2242187	0.91[JPT][hapmap]
rs2306097	0.91[JPT][hapmap]
rs2615143	0.91[JPT][hapmap]
rs2615145	0.91[JPT][hapmap]
rs2818238	0.82[JPT][hapmap]
rs2818243	0.91[JPT][hapmap]
rs3214072	0.86[JPT][hapmap]
rs3747489	0.91[JPT][hapmap]
rs3747493	0.86[JPT][hapmap]
rs3747496	0.86[JPT][hapmap]
rs3829122	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3862336	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4014789	0.82[ASN][1000 genomes]
rs4014790	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4237189	0.91[JPT][hapmap]
rs4313271	0.86[JPT][hapmap]
rs4366181	0.91[JPT][hapmap]
rs4523385	0.81[JPT][hapmap]
rs4743072	0.91[JPT][hapmap]
rs4743076	0.86[JPT][hapmap]
rs4743077	0.86[JPT][hapmap]
rs4743084	0.91[JPT][hapmap]
rs6478095	0.91[JPT][hapmap]
rs7042707	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs713066	0.90[JPT][hapmap]
rs750674	0.86[JPT][hapmap]
rs7859665	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs7863123	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7866267	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[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	nsv931946	chr9:99895658-100005099	Bivalent/Poised TSS Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv893607	chr9:99906545-99996548	Enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv893608	chr9:99906545-100005128	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv972433	chr9:99962059-99983443	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:99961400-99968800	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
2	chr9:99961400-99969200	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
3	chr9:99961800-99968800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
4	chr9:99961800-99969000	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
5	chr9:99961800-99969000	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
6	chr9:99961800-99969000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
7	chr9:99962000-99967000	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
8	chr9:99962400-99968800	ZNF genes & repeats	iPS-15b Cell Line	embryonic stem cell
9	chr9:99962600-99967800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr9:99962600-99969000	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
11	chr9:99963200-99965800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr9:99963400-99964400	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell

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