Variant report

Variant	rs351160
Chromosome Location	chr15:74546039-74546040
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:74542391..74545216-chr15:74545436..74547097,2	MCF-7	breast:
2	chr15:74544782..74547040-chr15:74550761..74553089,2	MCF-7	breast:
3	chr15:74543564..74546354-chr15:74548836..74550787,2	K562	blood:

Extended variants
information (count: 26 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11629834	0.82[JPT][hapmap]
rs11858661	0.95[CHB][hapmap];0.98[CHD][hapmap];0.83[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.96[ASN][1000 genomes]
rs11858677	0.96[ASN][1000 genomes]
rs12898529	0.81[JPT][hapmap]
rs12901093	0.80[ASN][1000 genomes]
rs12913344	0.82[JPT][hapmap]
rs1564784	0.82[JPT][hapmap];0.87[MEX][hapmap]
rs189497	0.82[JPT][hapmap]
rs2627305	0.97[ASN][1000 genomes]
rs351152	0.97[ASN][1000 genomes]
rs351154	0.96[ASN][1000 genomes]
rs351155	0.96[ASN][1000 genomes]
rs351159	0.83[CHB][hapmap];0.98[CHD][hapmap];0.86[JPT][hapmap];0.82[YRI][hapmap];0.89[ASN][1000 genomes]
rs351172	0.82[ASN][1000 genomes]
rs351175	0.91[CHD][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs3843700	0.89[ASN][1000 genomes]
rs3848164	0.94[ASN][1000 genomes]
rs58029965	0.91[ASN][1000 genomes]
rs61327819	0.96[ASN][1000 genomes]
rs62003670	0.95[ASN][1000 genomes]
rs6495091	0.91[CHD][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs876703	0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833053	chr15:74360156-74555140	Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv833054	chr15:74457643-74625283	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv904346	chr15:74458181-74548773	Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv904350	chr15:74500105-74548773	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs351160	SCAMP5	cis	parietal	SCAN
rs351160	RPLP1	cis	parietal	SCAN
rs351160	RPLP1	cis	cerebellum	SCAN

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74542000-74546200	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr15:74542200-74546800	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr15:74542400-74546200	Enhancers	Fetal Brain Male	brain
4	chr15:74542600-74547600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr15:74542800-74546200	Enhancers	Brain Angular Gyrus	brain
6	chr15:74542800-74546200	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr15:74542800-74546200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr15:74542800-74546200	Enhancers	Fetal Stomach	stomach
9	chr15:74543000-74546200	Enhancers	Hela-S3	cervix
10	chr15:74543200-74546200	Enhancers	Spleen	Spleen
11	chr15:74544000-74546200	Enhancers	NHDF-Ad	bronchial
12	chr15:74544000-74546200	Enhancers	Osteobl	bone
13	chr15:74544200-74546200	Enhancers	Skeletal Muscle Male	skeletal muscle
14	chr15:74544800-74546200	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
15	chr15:74545000-74547000	Weak transcription	Ovary	ovary
16	chr15:74545000-74550600	Weak transcription	Fetal Heart	heart
17	chr15:74545200-74546200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr15:74545200-74546400	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr15:74545200-74548400	Weak transcription	Lung	lung
20	chr15:74545400-74546200	Enhancers	H1 Cell Line	embryonic stem cell
21	chr15:74545400-74546200	Enhancers	HUES6 Cell Line	embryonic stem cell
22	chr15:74545400-74546200	Enhancers	Brain Germinal Matrix	brain
23	chr15:74545400-74546200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
24	chr15:74545400-74546400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
25	chr15:74545600-74546200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
26	chr15:74545600-74546200	Enhancers	Fetal Brain Female	brain
27	chr15:74545600-74546800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr15:74545800-74546200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr15:74545800-74546200	Enhancers	GM12878-XiMat	blood
30	chr15:74545800-74550800	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr15:74546000-74546200	Enhancers	Brain Anterior Caudate	brain
32	chr15:74546000-74549400	Weak transcription	Fetal Muscle Leg	muscle
33	chr15:74546000-74549800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr15:74546000-74550800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr15:74546000-74550800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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