Variant report

Variant	rs10846562
Chromosome Location	chr12:124340326-124340327
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10773039	0.88[ASN][1000 genomes]
rs10773041	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10773046	0.84[CHB][hapmap];0.90[JPT][hapmap]
rs10846564	0.92[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10846567	0.89[CHB][hapmap];0.90[JPT][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs10846570	0.90[JPT][hapmap]
rs10846571	0.90[JPT][hapmap]
rs10846572	0.94[CHB][hapmap];0.90[JPT][hapmap]
rs10846573	0.83[CHB][hapmap];0.90[JPT][hapmap]
rs10846574	0.84[JPT][hapmap]
rs11057381	0.89[CHB][hapmap];0.90[JPT][hapmap];0.83[YRI][hapmap];0.88[ASN][1000 genomes]
rs11057383	0.89[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs11057388	0.84[CHB][hapmap];0.90[JPT][hapmap]
rs11057390	0.84[CHB][hapmap];0.88[JPT][hapmap]
rs12306328	0.84[CHB][hapmap];0.90[JPT][hapmap]
rs12307524	0.84[CHB][hapmap];0.90[JPT][hapmap]
rs12309481	0.90[JPT][hapmap]
rs1317312	0.85[JPT][hapmap]
rs1317386	0.89[CHB][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs1882489	0.85[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs1922258	0.90[CHB][hapmap];0.90[JPT][hapmap];0.83[YRI][hapmap];0.88[ASN][1000 genomes]
rs2341779	0.92[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4390427	0.81[ASN][1000 genomes]
rs4930727	0.81[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs6488905	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6488907	0.84[CHB][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs6488910	0.90[JPT][hapmap]
rs7296123	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs7297429	0.86[ASN][1000 genomes]
rs7300037	0.84[ASN][1000 genomes]
rs7313897	0.90[CHB][hapmap];0.90[JPT][hapmap];0.84[YRI][hapmap];0.88[ASN][1000 genomes]
rs7314278	0.90[JPT][hapmap]
rs7314335	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7959043	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7959519	0.92[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7976319	0.90[JPT][hapmap]
rs7977078	0.90[JPT][hapmap]
rs7977713	0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9669530	0.89[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv498024	chr12:123994372-124459856	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	esv3390902	chr12:124339849-124342597	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:124326000-124341600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr12:124331400-124352800	Weak transcription	Fetal Brain Female	brain
3	chr12:124334200-124344200	Weak transcription	Brain Germinal Matrix	brain
4	chr12:124338600-124345400	Weak transcription	Fetal Brain Male	brain
5	chr12:124339600-124341600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr12:124340000-124341600	Weak transcription	Primary neutrophils fromperipheralblood	blood

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