Variant report

Variant	rs11552662
Chromosome Location	chr15:93161501-93161502
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:93153329..93154969-chr15:93161001..93162809,2	MCF-7	breast:
2	chr15:93160189..93163896-chr15:93165743..93168738,4	MCF-7	breast:
3	chr15:93160927..93163023-chr15:93285555..93287552,2	MCF-7	breast:
4	chr15:93153498..93156346-chr15:93158653..93161717,3	K562	blood:
5	chr15:93156262..93161664-chr15:93196023..93200716,9	MCF-7	breast:
6	chr15:93155996..93163499-chr15:93183947..93191862,21	MCF-7	breast:
7	chr15:93154756..93169106-chr15:93177301..93183879,27	MCF-7	breast:
8	chr15:93143587..93145344-chr15:93159569..93162051,2	MCF-7	breast:
9	chr15:93160760..93163231-chr15:93168458..93170459,2	MCF-7	breast:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C15orf32-3	chr15:93161488-93161701	NONHSAT049645
2	lnc-C15orf32-3	chr15:93161453-93161628	NONHSAT049647

No data

Variant related genes	Relation type
ENSG00000185442	Chromatin interaction
ENSG00000259064	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs17523778	0.83[CEU][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap]
rs1982175	0.88[CEU][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap]
rs285702	0.83[CHD][hapmap]
rs372228	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs426746	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs432364	0.88[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap];0.86[ASN][1000 genomes]
rs8030062	1.00[JPT][hapmap]
rs8032832	0.81[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037972	chr15:92804908-93270761	Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
2	nsv904499	chr15:92914795-93472582	Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	163 gene(s)	inside rSNPs	diseases
3	nsv948738	chr15:93070742-93728147	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
4	nsv1049490	chr15:93134405-93591660	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	151 gene(s)	inside rSNPs	diseases
5	esv1808537	chr15:93146057-93191935	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11552662	FAM174B	cis	parietal	SCAN
rs11552662	PLIN1	cis	parietal	SCAN

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:93151400-93167400	Weak transcription	Brain Germinal Matrix	brain
2	chr15:93151600-93178000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr15:93152800-93166800	Weak transcription	Esophagus	oesophagus
4	chr15:93156000-93167000	Weak transcription	Brain Anterior Caudate	brain
5	chr15:93156400-93167600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr15:93156600-93162600	Weak transcription	Brain Angular Gyrus	brain
7	chr15:93156600-93162600	Weak transcription	Brain Hippocampus Middle	brain
8	chr15:93156600-93163200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr15:93156600-93163600	Enhancers	Pancreas	Pancrea
10	chr15:93156600-93168400	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr15:93156800-93162600	Weak transcription	Aorta	Aorta
12	chr15:93156800-93166600	Weak transcription	Brain Cingulate Gyrus	brain
13	chr15:93157000-93162800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr15:93157600-93162400	Enhancers	Skeletal Muscle Female	skeletal muscle
15	chr15:93157800-93161600	Weak transcription	GM12878-XiMat	blood
16	chr15:93158000-93167600	Enhancers	Fetal Muscle Trunk	muscle
17	chr15:93158400-93163200	Weak transcription	Adipose Nuclei	Adipose
18	chr15:93158400-93164600	Enhancers	Fetal Muscle Leg	muscle
19	chr15:93158400-93167600	Weak transcription	Spleen	Spleen
20	chr15:93158600-93169800	Weak transcription	Primary T cells from cord blood	blood
21	chr15:93159400-93161800	Enhancers	Fetal Intestine Small	intestine
22	chr15:93159400-93166400	Weak transcription	Fetal Thymus	thymus
23	chr15:93159600-93161600	Enhancers	Stomach Smooth Muscle	stomach
24	chr15:93159600-93162600	Enhancers	Rectal Mucosa Donor 29	rectum
25	chr15:93159600-93163200	Enhancers	Fetal Intestine Large	intestine
26	chr15:93159600-93163400	Enhancers	Ovary	ovary
27	chr15:93159600-93165200	Enhancers	HUVEC	blood vessel
28	chr15:93159800-93161800	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr15:93159800-93161800	Enhancers	iPS-18 Cell Line	embryonic stem cell
30	chr15:93159800-93162000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
31	chr15:93159800-93162000	Enhancers	Fetal Lung	lung
32	chr15:93159800-93162200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr15:93159800-93162600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr15:93160000-93161800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
35	chr15:93160000-93162000	Enhancers	NH-A	brain
36	chr15:93160000-93162600	Enhancers	Liver	Liver
37	chr15:93160000-93163600	Enhancers	Left Ventricle	heart
38	chr15:93160200-93161600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr15:93160200-93161600	Weak transcription	Gastric	stomach
40	chr15:93160200-93162800	Genic enhancers	Fetal Stomach	stomach
41	chr15:93160200-93172800	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr15:93160400-93161600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr15:93160400-93161600	Flanking Active TSS	A549	lung
44	chr15:93160400-93163400	Enhancers	Fetal Heart	heart
45	chr15:93160400-93163400	Enhancers	Right Atrium	heart
46	chr15:93160400-93164000	Enhancers	Colon Smooth Muscle	Colon
47	chr15:93160400-93164000	Enhancers	Rectal Smooth Muscle	rectum
48	chr15:93160600-93161600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
49	chr15:93160600-93161800	Enhancers	ES-I3 Cell Line	embryonic stem cell
50	chr15:93160800-93161600	Flanking Active TSS	HSMMtube	muscle

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