Variant report

Variant	rs6739229
Chromosome Location	chr2:142580602-142580603
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 10 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10191193	1.00[JPT][hapmap]
rs10496903	0.89[MEX][hapmap]
rs11884813	0.80[CEU][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap]
rs11886631	0.89[MEX][hapmap]
rs12613418	1.00[JPT][hapmap]
rs1508600	0.80[CEU][hapmap];1.00[JPT][hapmap]
rs16847403	0.89[MEX][hapmap]
rs6429923	0.89[MEX][hapmap]
rs7569470	1.00[JPT][hapmap]
rs7603188	0.92[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap]

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	nsv834394	chr2:142430225-142593264	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv530398	chr2:142474842-142843839	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv875249	chr2:142527100-142614345	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv875250	chr2:142540240-142614345	Enhancers Weak transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
5	nsv1010008	chr2:142574406-142606021	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:10)

SNP	Gene	Cis/trans	Tissue	Source
rs6739229	AKAP7	trans	lymphoblastoid	seeQTL
rs6739229	PHLDB2	trans	lymphoblastoid	seeQTL
rs6739229	CCR6	trans	lymphoblastoid	seeQTL
rs6739229	TINAG	trans	lymphoblastoid	seeQTL
rs6739229	IRS1	trans	lymphoblastoid	seeQTL
rs6739229	UGT2A3	trans	lymphoblastoid	seeQTL
rs6739229	C1orf96	trans	lymphoblastoid	seeQTL
rs6739229	TNFRSF21	trans	lymphoblastoid	seeQTL
rs6739229	PTPRK	trans	lymphoblastoid	seeQTL
rs6739229	ISG15	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:142579000-142582400	Weak transcription	HUES64 Cell Line	embryonic stem cell

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Input of quick search could be:

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

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