Variant report

Variant	rs9556404
Chromosome Location	chr13:95254382-95254383
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:95247274..95249727-chr13:95251841..95255221,4	MCF-7	breast:
2	chr13:95245952..95249992-chr13:95252491..95255739,5	K562	blood:
3	chr13:95253950..95254517-chr3:32611848..32612500,2	NB4	blood:
4	chr13:95246267..95250128-chr13:95251933..95256020,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000088451	Chromatin interaction
ENSG00000144635	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs2298058	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6492720	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6492721	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9561643	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34004	chr13:94906537-95392644	Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv832685	chr13:95179676-95279966	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv832686	chr13:95206742-95400992	Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9556404	GPR180	cis	lung	GTEx

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:95253000-95255600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
2	chr13:95253200-95254600	Active TSS	Stomach Smooth Muscle	stomach
3	chr13:95253200-95254800	Active TSS	Brain Hippocampus Middle	brain
4	chr13:95253200-95255200	Active TSS	Brain Angular Gyrus	brain
5	chr13:95253200-95255800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr13:95253400-95254800	Active TSS	Colon Smooth Muscle	Colon
7	chr13:95253400-95254800	Active TSS	Skeletal Muscle Male	skeletal muscle
8	chr13:95253400-95255000	Active TSS	Brain Inferior Temporal Lobe	brain
9	chr13:95253400-95255000	Active TSS	Brain Substantia Nigra	brain
10	chr13:95253400-95255200	Active TSS	Fetal Kidney	kidney
11	chr13:95253600-95254400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
12	chr13:95253600-95254600	Active TSS	Primary T helper naive cells from peripheral blood	blood
13	chr13:95253600-95254600	Active TSS	Primary T killer naive cells fromperipheralblood	blood
14	chr13:95253600-95254800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr13:95253600-95254800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr13:95253600-95254800	Active TSS	Breast Myoepithelial Primary Cells	Breast
17	chr13:95253600-95254800	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr13:95253600-95254800	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr13:95253600-95254800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr13:95253600-95254800	Active TSS	Brain Anterior Caudate	brain
21	chr13:95253600-95254800	Active TSS	Brain Cingulate Gyrus	brain
22	chr13:95253600-95254800	Active TSS	Duodenum Smooth Muscle	Duodenum
23	chr13:95253600-95254800	Active TSS	Left Ventricle	heart
24	chr13:95253600-95254800	Active TSS	Lung	lung
25	chr13:95253600-95254800	Active TSS	Psoas Muscle	Psoas
26	chr13:95253600-95254800	Active TSS	Rectal Mucosa Donor 31	rectum
27	chr13:95253600-95254800	Active TSS	Stomach Mucosa	stomach
28	chr13:95253600-95254800	Active TSS	Hela-S3	cervix
29	chr13:95253600-95254800	Active TSS	NHLF	lung
30	chr13:95253600-95255000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
31	chr13:95253600-95255000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr13:95253600-95255000	Active TSS	Aorta	Aorta
33	chr13:95253600-95255000	Active TSS	Fetal Lung	lung
34	chr13:95253600-95255000	Active TSS	Ovary	ovary
35	chr13:95253600-95255000	Active TSS	Placenta Amnion	Placenta Amnion
36	chr13:95253600-95255000	Active TSS	Rectal Smooth Muscle	rectum
37	chr13:95253600-95255000	Active TSS	Right Atrium	heart
38	chr13:95253600-95255000	Active TSS	Right Ventricle	heart
39	chr13:95253600-95255000	Active TSS	A549	lung
40	chr13:95253600-95255000	Active TSS	HSMMtube	muscle
41	chr13:95253600-95255000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
42	chr13:95253600-95255000	Active TSS	NHEK	skin
43	chr13:95253600-95255200	Active TSS	iPS-15b Cell Line	embryonic stem cell
44	chr13:95253600-95255200	Active TSS	Brain Germinal Matrix	brain
45	chr13:95253600-95255200	Active TSS	Fetal Brain Female	brain
46	chr13:95253600-95255200	Active TSS	Fetal Stomach	stomach
47	chr13:95253600-95255200	Active TSS	Rectal Mucosa Donor 29	rectum
48	chr13:95253600-95255200	Active TSS	NHDF-Ad	bronchial
49	chr13:95253600-95255600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr13:95253600-95255800	Active TSS	ES-I3 Cell Line	embryonic stem cell

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