Variant report

Variant	rs7030698
Chromosome Location	chr9:100153904-100153905
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:100149125..100152015-chr9:100152467..100154475,2	K562	blood:
2	chr9:100149125..100151047-chr9:100151218..100153967,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TSTD2-4	chr9:100153119-100154560	NONHSAT133504
2	lnc-TSTD2-4	chr9:100153118-100154996	NONHSAT133503
3	lnc-TSTD2-4	chr9:100153121-100154560	XLOC_007795

Extended variants
information (count: 79 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10435866	0.90[CEU][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10733603	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10739337	0.91[CEU][hapmap]
rs10759542	0.91[CEU][hapmap]
rs10759547	0.91[CEU][hapmap]
rs10759610	0.91[CEU][hapmap]
rs10759619	1.00[CEU][hapmap];0.97[GIH][hapmap];0.80[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes]
rs10759643	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10817300	0.91[CEU][hapmap];0.83[GIH][hapmap];1.00[TSI][hapmap]
rs10817306	0.91[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap]
rs10817361	0.91[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap]
rs10817448	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs10817492	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs10817513	0.95[EUR][1000 genomes]
rs10817515	0.95[EUR][1000 genomes]
rs10981551	1.00[CEU][hapmap]
rs10981560	0.91[CEU][hapmap];0.82[GIH][hapmap];0.93[TSI][hapmap]
rs10981625	1.00[CEU][hapmap];0.97[GIH][hapmap];0.90[JPT][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes]
rs10981676	0.80[AMR][1000 genomes]
rs10981848	0.92[EUR][1000 genomes]
rs10981851	0.92[EUR][1000 genomes]
rs10981889	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs10981916	1.00[CEU][hapmap];0.90[GIH][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs12378801	0.92[EUR][1000 genomes]
rs12683119	0.91[CEU][hapmap]
rs12683933	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs1462086	1.00[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs1462087	1.00[CEU][hapmap];0.90[JPT][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1462092	0.91[CEU][hapmap]
rs1531439	0.91[CEU][hapmap];0.85[EUR][1000 genomes]
rs17331748	0.92[EUR][1000 genomes]
rs1870859	1.00[CEU][hapmap]
rs2061634	1.00[CEU][hapmap];0.97[GIH][hapmap];0.80[JPT][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2061635	1.00[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs2255135	0.91[CEU][hapmap]
rs2255139	0.91[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap]
rs2401382	0.91[CEU][hapmap];0.83[GIH][hapmap];1.00[TSI][hapmap]
rs2447290	0.91[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap]
rs2487874	0.91[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap]
rs2615144	0.86[CEU][hapmap]
rs2795363	0.91[CEU][hapmap]
rs2795366	0.91[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap]
rs2795369	0.91[CEU][hapmap]
rs2795370	0.91[CEU][hapmap]
rs2818236	0.91[CEU][hapmap]
rs2818240	0.91[CEU][hapmap]
rs2818241	0.91[CEU][hapmap]
rs2818242	0.91[CEU][hapmap]
rs2818244	0.91[CEU][hapmap]
rs2859564	0.91[CEU][hapmap]
rs2888960	0.91[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap]
rs3994559	0.91[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap]
rs4345679	1.00[CEU][hapmap];0.97[GIH][hapmap];0.90[JPT][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes]
rs4437755	0.91[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap]
rs4645658	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4742683	0.91[CEU][hapmap]
rs4742684	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4743074	0.90[JPT][hapmap];0.83[AMR][1000 genomes]
rs4743075	1.00[CEU][hapmap];0.80[JPT][hapmap];0.86[AMR][1000 genomes]
rs4743080	1.00[CEU][hapmap];0.80[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56077563	0.91[EUR][1000 genomes]
rs56306467	0.88[EUR][1000 genomes]
rs6478043	0.91[CEU][hapmap]
rs6478048	0.91[CEU][hapmap]
rs6478059	0.91[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap]
rs7020002	0.91[CEU][hapmap]
rs7023087	0.91[CEU][hapmap]
rs7026287	0.91[CEU][hapmap]
rs7026893	1.00[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap];0.81[EUR][1000 genomes]
rs7029749	1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs725228	0.91[CEU][hapmap];0.83[GIH][hapmap];1.00[TSI][hapmap]
rs752243	1.00[CEU][hapmap]
rs7847332	1.00[CEU][hapmap];0.97[GIH][hapmap];0.90[JPT][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7855385	0.91[CEU][hapmap]
rs7855956	1.00[CEU][hapmap];0.97[GIH][hapmap];0.80[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes]
rs7863530	0.91[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap]
rs9299202	0.91[CEU][hapmap];0.86[GIH][hapmap];1.00[TSI][hapmap]
rs9409139	0.95[CEU][hapmap]

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	nsv1036105	chr9:100131266-100171816	Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7030698	CCDC180	cis	Artery Tibial	GTEx
rs7030698	ECM2	cis	parietal	SCAN
rs7030698	RP11-23J9.4	cis	Artery Tibial	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100149600-100154400	Weak transcription	Gastric	stomach
2	chr9:100149600-100161400	Weak transcription	Right Atrium	heart
3	chr9:100151600-100154000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr9:100151800-100154000	Weak transcription	HepG2	liver
5	chr9:100152000-100157800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr9:100153000-100159200	Weak transcription	GM12878-XiMat	blood

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