Variant report

Variant	rs12656917
Chromosome Location	chr5:68302557-68302558
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CCDC125-14	chr5:68301696-68302660	ucscGeneNc_uc003jvf_1

Extended variants
information (count: 54 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10035142	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10042265	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10055717	0.88[CEU][hapmap];0.81[CHB][hapmap];0.81[JPT][hapmap]
rs10755226	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10805425	1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.84[TSI][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10940191	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12697069	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2876310	0.80[ASN][1000 genomes]
rs3922936	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3922937	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4269255	0.81[ASN][1000 genomes]
rs4336313	0.94[ASN][1000 genomes]
rs4373240	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4432834	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4443379	0.94[CEU][hapmap];0.86[CHB][hapmap];0.82[CHD][hapmap];0.85[JPT][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4594812	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4976004	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4976007	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4976056	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4976057	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4976058	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4976067	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4976068	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5022687	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5022688	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6449989	0.84[CEU][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6450000	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6861079	0.82[ASN][1000 genomes]
rs6873113	0.82[CEU][hapmap];0.80[CHB][hapmap]
rs6874327	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6874774	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6877507	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6877626	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6877919	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6882278	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6887916	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6888650	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6894214	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7446085	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7448416	0.80[ASN][1000 genomes]
rs7711962	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7712326	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7712349	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7718238	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7718531	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7727236	0.82[ASN][1000 genomes]
rs7729300	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7732664	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7732834	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7733298	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7733454	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7734105	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9885496	0.95[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2763462	chr5:68295338-68307023	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12656917	MAST4	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:68300600-68302800	Weak transcription	Fetal Lung	lung
2	chr5:68301600-68303000	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr5:68302400-68303600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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