Variant report

Variant	rs58361139
Chromosome Location	chr9:96110748-96110749
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	chr9:96110726-96110768	H1-hESC	embryonic stem cell:	n/a	n/a
2	POLR2A	chr9:96110390-96110968	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr9:96110677-96110950	H1-hESC	embryonic stem cell:	n/a	n/a
4	POLR2A	chr9:96110590-96110963	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
C9orf129	TF binding region

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10992715	0.83[AMR][1000 genomes]
rs12550993	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12554984	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13290287	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs13296817	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13298340	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16909074	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34187850	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34360996	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34406556	0.81[ASN][1000 genomes]
rs34590502	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35383386	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35807838	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36081907	0.82[EUR][1000 genomes]
rs56833280	0.86[AMR][1000 genomes]
rs62572859	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62574479	0.83[AMR][1000 genomes]
rs6479474	0.86[EUR][1000 genomes]
rs7042943	0.82[EUR][1000 genomes]
rs7046002	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7850794	0.83[AMR][1000 genomes]
rs7870747	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[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	nsv893576	chr9:95789960-96158277	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv893582	chr9:95963114-96116937	Bivalent Enhancer Bivalent/Poised TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv893584	chr9:96002983-96116937	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	esv1798245	chr9:96098930-96120432	Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Bivalent/Poised TSS Enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96107400-96113000	Active TSS	iPS-15b Cell Line	embryonic stem cell
2	chr9:96107600-96111600	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
3	chr9:96108000-96113000	Active TSS	H9 Cell Line	embryonic stem cell
4	chr9:96109200-96127800	Weak transcription	Right Atrium	heart
5	chr9:96109400-96113000	Active TSS	HUES48 Cell Line	embryonic stem cell
6	chr9:96109800-96111000	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
7	chr9:96109800-96111000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
8	chr9:96110000-96112400	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr9:96110400-96111000	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
10	chr9:96110600-96110800	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
11	chr9:96110600-96111000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
12	chr9:96110600-96111200	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr9:96110600-96111200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
14	chr9:96110600-96114000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links