Variant report

Variant	rs9878707
Chromosome Location	chr3:85076361-85076362
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs12714616	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12714617	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13066623	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13075494	0.85[AMR][1000 genomes]
rs13082518	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13092125	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13096651	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2101344	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2171143	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28693686	0.83[AMR][1000 genomes]
rs6791363	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7628129	0.81[ASN][1000 genomes]
rs7630382	0.81[ASN][1000 genomes]
rs9309967	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9647393	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9815258	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9818659	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9821807	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9823454	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9828496	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9860513	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9870384	0.81[AMR][1000 genomes]
rs9874302	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9876378	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9877460	0.98[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9878472	0.81[ASN][1000 genomes]
rs9881257	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9883443	0.98[AMR][1000 genomes];0.91[EUR][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	nsv1002058	chr3:84757044-85389876	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv1829788	chr3:84926769-85086403	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	esv3419993	chr3:85030343-85663403	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv492289	chr3:85066623-85319147	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv2753915	chr3:85071410-85624810	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85055800-85081400	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr3:85065200-85082200	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:85068600-85090600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr3:85071400-85082400	Weak transcription	Fetal Brain Female	brain
5	chr3:85071600-85082000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr3:85071800-85081400	Weak transcription	Brain Angular Gyrus	brain
7	chr3:85073400-85077200	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr3:85073600-85078400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr3:85073600-85078600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr3:85073600-85078800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr3:85073600-85079000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr3:85073800-85078400	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr3:85074000-85079000	Weak transcription	HUES6 Cell Line	embryonic stem cell

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