Variant report

Variant	rs4887111
Chromosome Location	chr15:74028285-74028286
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1038093	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];0.91[JPT][hapmap];0.96[MEX][hapmap];0.86[TSI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11072438	0.95[ASN][1000 genomes]
rs12440563	0.85[LWK][hapmap];0.88[YRI][hapmap]
rs12442096	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12913243	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1542544	0.80[CHB][hapmap]
rs17187183	0.86[CHB][hapmap];0.90[JPT][hapmap];0.87[YRI][hapmap]
rs2127018	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28485305	0.87[ASN][1000 genomes]
rs28505607	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28594180	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28655328	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28709470	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4886520	0.94[ASN][1000 genomes]
rs4887161	0.82[AFR][1000 genomes]
rs60833441	0.81[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs7162423	0.86[ASW][hapmap];0.86[CHB][hapmap];0.83[CHD][hapmap];0.91[JPT][hapmap];0.90[LWK][hapmap];0.88[YRI][hapmap];0.80[ASN][1000 genomes]
rs7171779	0.86[ASW][hapmap];0.85[LWK][hapmap]
rs7172656	0.86[ASW][hapmap];0.85[LWK][hapmap]

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	nsv471252	chr15:74006691-74089793	Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv569970	chr15:74016622-74059081	Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4887111	COMMD4	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74007400-74031400	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr15:74015800-74033400	Weak transcription	Ovary	ovary
3	chr15:74021800-74033400	Weak transcription	Right Atrium	heart
4	chr15:74023600-74036400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr15:74025600-74035200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr15:74027000-74033400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr15:74027800-74031600	Weak transcription	Fetal Brain Female	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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