Variant report

Variant	rs10992711
Chromosome Location	chr9:96115678-96115679
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10761210	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs10761211	0.83[ASN][1000 genomes]
rs10761216	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10761217	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10821109	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10821118	0.94[ASN][1000 genomes]
rs10992701	0.85[CHB][hapmap];0.80[JPT][hapmap]
rs10992708	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10992709	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10992713	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11521661	0.85[ASN][1000 genomes]
rs11789033	0.89[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs12235484	0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12685091	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2086105	0.95[ASN][1000 genomes]
rs2841680	0.83[CEU][hapmap]
rs2841681	0.83[CEU][hapmap]
rs2991377	0.86[CHB][hapmap]
rs2991384	0.87[ASN][1000 genomes]
rs2995995	0.84[ASN][1000 genomes]
rs2995997	0.86[CHB][hapmap]
rs2995998	0.86[CHB][hapmap]
rs3933798	1.00[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.83[YRI][hapmap];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62574460	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7022263	0.91[AFR][1000 genomes]
rs7041850	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7042763	0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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
5	esv2761278	chr9:96115678-96126104	ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers Enhancers Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10992711	GADD45G	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96109200-96127800	Weak transcription	Right Atrium	heart
2	chr9:96111200-96115800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:96111200-96122400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr9:96112400-96116000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr9:96114000-96115800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr9:96114200-96115800	Active TSS	H9 Cell Line	embryonic stem cell
7	chr9:96115400-96116000	Transcr. at gene 5' and 3'	HUES6 Cell Line	embryonic stem cell
8	chr9:96115400-96116600	Enhancers	Placenta	Placenta
9	chr9:96115400-96117200	Transcr. at gene 5' and 3'	iPS-15b Cell Line	embryonic stem cell
10	chr9:96115600-96115800	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr9:96115600-96116000	Transcr. at gene 5' and 3'	HUES64 Cell Line	embryonic stem cell
12	chr9:96115600-96116000	Transcr. at gene 5' and 3'	iPS-20b Cell Line	embryonic stem cell
13	chr9:96115600-96117000	Transcr. at gene 5' and 3'	HUES48 Cell Line	embryonic stem cell
14	chr9:96115600-96117200	Transcr. at gene 5' and 3'	ES-I3 Cell Line	embryonic stem cell
15	chr9:96115600-96117200	Genic enhancers	H1 Cell Line	embryonic stem cell

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