Variant report

Variant	rs10456623
Chromosome Location	chr6:13171279-13171280
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10948523	1.00[CEU][hapmap];0.85[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1150608	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1150609	1.00[CEU][hapmap];0.90[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.91[MEX][hapmap];0.94[TSI][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1150610	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1150611	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1223542	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1223556	1.00[CEU][hapmap];0.85[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1232381	1.00[ASW][hapmap]
rs1237055	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs202064	1.00[ASW][hapmap]
rs4273688	0.82[EUR][1000 genomes]
rs453695	1.00[ASW][hapmap]
rs60384263	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6924931	1.00[CEU][hapmap];0.85[JPT][hapmap];0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv600992	chr6:12961922-13218549	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
2	nsv883450	chr6:13166341-13196011	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	esv3410053	chr6:13167955-13174148	Weak transcription Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10456623	RANBP9	cis	cerebellum	SCAN
rs10456623	TBC1D7	cis	cerebellum	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13150000-13175600	Weak transcription	Lung	lung
2	chr6:13153400-13178000	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr6:13153600-13178200	Weak transcription	Brain Cingulate Gyrus	brain
4	chr6:13153600-13178200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr6:13153800-13184200	Weak transcription	Aorta	Aorta
6	chr6:13154000-13175600	Weak transcription	Fetal Heart	heart
7	chr6:13159200-13181800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:13159600-13178400	Weak transcription	Right Ventricle	heart
9	chr6:13160000-13171400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr6:13160000-13177400	Weak transcription	Primary hematopoietic stem cells	blood
11	chr6:13162400-13175600	Weak transcription	Left Ventricle	heart
12	chr6:13163600-13183400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:13163800-13171400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr6:13164800-13183400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:13164800-13184400	Weak transcription	Pancreas	Pancrea
16	chr6:13166600-13175400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr6:13166600-13177800	Weak transcription	Brain Hippocampus Middle	brain
18	chr6:13168000-13172400	Weak transcription	Brain Anterior Caudate	brain
19	chr6:13169200-13174200	Weak transcription	Fetal Brain Female	brain
20	chr6:13171000-13175600	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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