Variant report

Variant	rs9819930
Chromosome Location	chr3:59933791-59933792
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C3orf67-2	chr3:59931618-59934022	ucscGeneNc_uc003dkz_2

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11707548	0.85[CHB][hapmap];0.90[CHD][hapmap];0.85[JPT][hapmap];0.84[ASN][1000 genomes]
rs11707783	0.93[ASW][hapmap];0.80[CEU][hapmap];0.85[CHB][hapmap];0.87[CHD][hapmap];0.85[JPT][hapmap];0.85[LWK][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11711589	0.80[CEU][hapmap];0.90[JPT][hapmap];0.81[EUR][1000 genomes]
rs11715442	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11921436	0.81[EUR][1000 genomes]
rs13064036	0.82[JPT][hapmap]
rs13072228	0.82[CHD][hapmap]
rs13075410	0.82[JPT][hapmap]
rs1879996	0.80[CEU][hapmap];0.85[JPT][hapmap]
rs212015	0.80[CEU][hapmap]
rs212017	0.93[CEU][hapmap]
rs212018	0.86[CEU][hapmap]
rs212034	0.80[CEU][hapmap];0.85[JPT][hapmap];0.81[EUR][1000 genomes]
rs2366964	0.90[CHB][hapmap];0.90[CHD][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.96[ASN][1000 genomes]
rs2630167	0.93[CEU][hapmap]
rs2687895	0.93[CEU][hapmap];0.86[TSI][hapmap]
rs2736802	0.80[CEU][hapmap];0.90[JPT][hapmap]
rs3772475	0.80[CEU][hapmap];0.85[JPT][hapmap]
rs3772476	0.82[JPT][hapmap]
rs3772477	0.85[JPT][hapmap]
rs6446097	0.90[CHB][hapmap];0.92[CHD][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs6446100	0.85[JPT][hapmap]
rs6446102	0.80[CHD][hapmap]
rs6446104	0.82[CHD][hapmap]
rs7625787	0.93[ASW][hapmap];0.85[GIH][hapmap]
rs7627676	0.93[CEU][hapmap];0.86[TSI][hapmap];0.86[EUR][1000 genomes]
rs7629424	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs802777	0.86[CEU][hapmap]
rs802779	0.93[CEU][hapmap]
rs9865672	0.85[JPT][hapmap]
rs9881070	0.90[JPT][hapmap];0.82[EUR][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	nsv428085	chr3:59782509-60070116	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1014983	chr3:59884024-60558331	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv590387	chr3:59890976-60481459	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59927200-59938400	Weak transcription	Fetal Thymus	thymus
2	chr3:59927600-59940200	Weak transcription	Thymus	Thymus
3	chr3:59928000-59937200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr3:59928400-59938200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr3:59928800-59942800	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr3:59932800-59934000	ZNF genes & repeats	Primary T cells from cord blood	blood
7	chr3:59933200-59942800	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr3:59933600-59934000	Strong transcription	Dnd41	blood

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