Variant report

Variant	rs1055876
Chromosome Location	chr12:32536200-32536201
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:32534948..32536924-chr12:32539453..32542087,2	K562	blood:
2	chr12:32534188..32536796-chr12:32561079..32564068,2	MCF-7	breast:
3	chr12:32535707..32537411-chr12:32551451..32553487,2	MCF-7	breast:
4	chr12:32534459..32536924-chr12:32539453..32542230,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-BICD1-1	chr12:32534220-32536567	NONHSAT027609

Variant related genes	Relation type
ENSG00000139132	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11051969	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11051970	0.94[EUR][1000 genomes]
rs11051973	0.96[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs11051975	0.96[AFR][1000 genomes]
rs11051976	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11051985	0.83[ASN][1000 genomes]
rs11051986	0.84[ASN][1000 genomes]
rs11051987	0.83[ASN][1000 genomes]
rs11051988	0.84[ASN][1000 genomes]
rs11051989	0.83[ASN][1000 genomes]
rs11051991	0.82[ASN][1000 genomes]
rs11051992	0.81[ASN][1000 genomes]
rs12227991	0.96[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs12228004	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12229856	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1500874	0.82[CEU][hapmap]
rs16919774	0.89[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs1872829	0.95[CEU][hapmap];0.94[EUR][1000 genomes]
rs2270786	0.84[CHB][hapmap];0.95[JPT][hapmap]
rs2651360	0.82[CEU][hapmap]
rs2651362	0.82[CEU][hapmap]
rs2651363	0.82[CEU][hapmap]
rs2651369	0.85[EUR][1000 genomes]
rs2728671	0.83[CEU][hapmap]
rs4540912	0.82[CEU][hapmap]
rs4931013	0.83[ASN][1000 genomes]
rs4931623	0.83[ASN][1000 genomes]
rs56670459	0.94[ASN][1000 genomes]
rs6488050	1.00[CEU][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6488051	0.96[CEU][hapmap];0.93[EUR][1000 genomes]
rs7132235	0.96[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7297381	0.82[ASN][1000 genomes]
rs73081911	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73084099	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73084101	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73086036	0.82[ASN][1000 genomes]
rs73086040	0.82[ASN][1000 genomes]
rs7309706	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7313432	0.81[ASN][1000 genomes]
rs950079	0.83[CEU][hapmap]
rs950080	0.83[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531960	chr12:32257285-32775277	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	esv2751096	chr12:32280340-32702784	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv558171	chr12:32287259-32559693	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv469346	chr12:32531220-32587465	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv558188	chr12:32531220-32587465	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	esv1815828	chr12:32533730-32537488	Weak transcription Enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
7	nsv1054191	chr12:32534619-32733066	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv541455	chr12:32534619-32733066	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:32532600-32543400	Weak transcription	H1 Cell Line	embryonic stem cell

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