Variant report

Variant	rs12910558
Chromosome Location	chr15:75396809-75396810
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:75396160..75400460-chr15:75492544..75495531,4	MCF-7	breast:
2	chr15:75396689..75398757-chr15:75493446..75495578,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000167173	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs4886649	1.00[AFR][1000 genomes]
rs8028129	0.80[EUR][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	nsv569993	chr15:75242155-75483752	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases
2	nsv457205	chr15:75336729-75447773	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv569994	chr15:75336729-75447773	Genic enhancers Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv904383	chr15:75382542-75520378	Weak transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
5	esv1796196	chr15:75389382-75531124	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
6	nsv1039713	chr15:75394213-75674389	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12910558	SCAMP2	cis	Whole Blood	GTEx

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75383200-75397200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr15:75390000-75397000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr15:75394800-75397400	Weak transcription	Fetal Thymus	thymus
4	chr15:75394800-75397400	Enhancers	GM12878-XiMat	blood
5	chr15:75395400-75403400	Enhancers	Placenta	Placenta
6	chr15:75395600-75405800	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr15:75395800-75397000	Enhancers	Primary neutrophils fromperipheralblood	blood
8	chr15:75395800-75397000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr15:75395800-75397200	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr15:75396000-75398800	Enhancers	Primary B cells from peripheral blood	blood
11	chr15:75396400-75398600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
12	chr15:75396600-75397000	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr15:75396600-75397000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
14	chr15:75396600-75397000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr15:75396600-75397000	Enhancers	Hela-S3	cervix
16	chr15:75396600-75397800	Enhancers	Primary T cells fromperipheralblood	blood
17	chr15:75396600-75398600	Enhancers	Lung	lung
18	chr15:75396600-75398800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr15:75396600-75398800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr15:75396600-75398800	Enhancers	Spleen	Spleen
21	chr15:75396600-75401400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr15:75396600-75402200	Enhancers	HUVEC	blood vessel
23	chr15:75396600-75405600	Enhancers	Primary hematopoietic stem cells	blood
24	chr15:75396600-75406200	Enhancers	Primary B cells from cord blood	blood
25	chr15:75396800-75398600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr15:75396800-75398800	Enhancers	HepG2	liver

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