Variant report

Variant	rs7180545
Chromosome Location	chr15:58814271-58814272
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:58811000..58814506-chr15:58833587..58836863,3	K562	blood:
2	chr15:58814045..58816618-chr15:58898707..58900922,2	MCF-7	breast:
3	chr15:58813787..58816646-chr15:58861427..58864530,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM63B-2	chr15:58814150-58815568	ENSG00000249011
2	lnc-FAM63B-2	chr15:58814150-58815570	ENSG00000259476.1

Variant related genes	Relation type
ENSG00000166035	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10851638	1.00[AMR][1000 genomes]
rs11635819	1.00[AMR][1000 genomes]
rs11635859	1.00[AMR][1000 genomes]
rs11636014	1.00[AMR][1000 genomes]
rs11637823	1.00[AMR][1000 genomes]
rs12440615	1.00[AMR][1000 genomes]
rs1978579	1.00[AMR][1000 genomes]
rs2053940	1.00[AMR][1000 genomes]
rs2414602	1.00[AMR][1000 genomes]
rs2414603	1.00[AMR][1000 genomes]
rs2899633	1.00[AMR][1000 genomes]
rs35631005	1.00[AMR][1000 genomes]
rs4288939	1.00[AMR][1000 genomes]
rs4775080	1.00[AMR][1000 genomes]
rs4775081	1.00[AMR][1000 genomes]
rs4775082	1.00[AMR][1000 genomes]
rs6494019	1.00[AMR][1000 genomes]
rs6494020	1.00[AMR][1000 genomes]
rs6494021	1.00[AMR][1000 genomes]
rs6494022	1.00[AMR][1000 genomes]
rs6494023	1.00[AMR][1000 genomes]
rs7163112	1.00[AMR][1000 genomes]
rs7164082	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7168293	1.00[AMR][1000 genomes]
rs7169280	1.00[AMR][1000 genomes]
rs7176457	1.00[AMR][1000 genomes]
rs7180706	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8038420	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers 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 miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv569598	chr15:58552606-58852463	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	esv3362898	chr15:58705732-58850860	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv1043041	chr15:58744505-58876327	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv569601	chr15:58800766-58866156	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58804000-58816200	Weak transcription	Liver	Liver
2	chr15:58807600-58815400	Enhancers	Fetal Thymus	thymus
3	chr15:58807800-58815800	Enhancers	Primary B cells from cord blood	blood
4	chr15:58807800-58820200	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr15:58808400-58816200	Weak transcription	HepG2	liver
6	chr15:58809600-58814800	Enhancers	Fetal Stomach	stomach
7	chr15:58809600-58817000	Enhancers	Brain Substantia Nigra	brain
8	chr15:58811200-58815400	Enhancers	GM12878-XiMat	blood
9	chr15:58811600-58815800	Enhancers	Brain Hippocampus Middle	brain
10	chr15:58811800-58815400	Enhancers	Spleen	Spleen
11	chr15:58811800-58815600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
12	chr15:58811800-58815800	Enhancers	Brain Inferior Temporal Lobe	brain
13	chr15:58812000-58814400	Enhancers	Brain Cingulate Gyrus	brain
14	chr15:58812000-58815800	Enhancers	Brain Anterior Caudate	brain
15	chr15:58812200-58814600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
16	chr15:58812400-58814600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
17	chr15:58812400-58814600	Enhancers	Primary hematopoietic stem cells	blood
18	chr15:58812400-58814800	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr15:58812400-58815800	Enhancers	Fetal Muscle Leg	muscle
20	chr15:58812400-58816000	Enhancers	Placenta Amnion	Placenta Amnion
21	chr15:58812600-58814600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr15:58812600-58815200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr15:58812600-58815400	Enhancers	Esophagus	oesophagus
24	chr15:58812600-58815400	Enhancers	Right Atrium	heart
25	chr15:58812600-58815400	Enhancers	Right Ventricle	heart
26	chr15:58812600-58815600	Enhancers	Adipose Nuclei	Adipose
27	chr15:58812600-58815800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr15:58812600-58816200	Enhancers	Left Ventricle	heart
29	chr15:58812600-58816400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr15:58812600-58816800	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr15:58812600-58818000	Enhancers	Placenta	Placenta
32	chr15:58812800-58818600	Weak transcription	Gastric	stomach
33	chr15:58813000-58815400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr15:58813200-58814400	Enhancers	Fetal Muscle Trunk	muscle
35	chr15:58813200-58814400	Enhancers	NHLF	lung
36	chr15:58813200-58814600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
37	chr15:58813200-58814600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr15:58813200-58814600	Enhancers	NH-A	brain
39	chr15:58813200-58815000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr15:58813200-58815000	Enhancers	NHDF-Ad	bronchial
41	chr15:58813200-58815200	Enhancers	Skeletal Muscle Female	skeletal muscle
42	chr15:58813200-58815400	Enhancers	HMEC	breast
43	chr15:58813200-58815600	Enhancers	Aorta	Aorta
44	chr15:58813200-58815600	Enhancers	Pancreas	Pancrea
45	chr15:58813200-58817000	Enhancers	Breast Myoepithelial Primary Cells	Breast
46	chr15:58813400-58814400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr15:58813400-58814400	Weak transcription	Psoas Muscle	Psoas
48	chr15:58813400-58814600	Enhancers	Fetal Kidney	kidney
49	chr15:58813400-58815400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr15:58813400-58815400	Enhancers	HSMM	muscle

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