Variant report

Variant	rs9967524
Chromosome Location	chr18:29676870-29676871
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr18:29671561-29677909	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:29671668..29674127-chr18:29674569..29677601,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000265008	TF binding region
ENSG00000134758	Chromatin interaction
ENSG00000265008	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12605137	0.82[ASN][1000 genomes]
rs4799631	0.81[EUR][1000 genomes]
rs4799632	0.86[ASN][1000 genomes]
rs627346	0.83[EUR][1000 genomes]
rs7238559	0.82[ASN][1000 genomes]
rs9953463	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv909523	chr18:29645496-29679922	Enhancers Strong transcription Genic enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1055457	chr18:29654978-29677371	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9967524	RNF138	Cis_1M	lymphoblastoid	RTeQTL
rs9967524	RNF138	cis	multi-tissue	Pritchard

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29673400-29692800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr18:29673400-29713800	Weak transcription	Spleen	Spleen
3	chr18:29673600-29678400	Flanking Active TSS	Primary T cells from cord blood	blood
4	chr18:29673800-29677000	Enhancers	Fetal Heart	heart
5	chr18:29673800-29678000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr18:29673800-29679400	Weak transcription	Gastric	stomach
7	chr18:29673800-29702000	Weak transcription	Pancreas	Pancrea
8	chr18:29673800-29714000	Weak transcription	Esophagus	oesophagus
9	chr18:29673800-29714200	Weak transcription	Ovary	ovary
10	chr18:29673800-29715200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr18:29673800-29715200	Weak transcription	Lung	lung
12	chr18:29673800-29715800	Weak transcription	Colonic Mucosa	Colon
13	chr18:29673800-29717000	Weak transcription	HSMMtube	muscle
14	chr18:29674000-29677400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
15	chr18:29674000-29679000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr18:29674000-29679600	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr18:29674000-29689200	Weak transcription	Right Atrium	heart
18	chr18:29674000-29692600	Weak transcription	Placenta	Placenta
19	chr18:29674000-29712000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr18:29674200-29677800	Genic enhancers	Primary monocytes fromperipheralblood	blood
21	chr18:29674200-29692800	Weak transcription	HSMM	muscle
22	chr18:29674200-29693000	Weak transcription	Fetal Muscle Trunk	muscle
23	chr18:29674400-29677000	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr18:29674400-29678400	Genic enhancers	Fetal Thymus	thymus
25	chr18:29674400-29679400	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr18:29674600-29677000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr18:29674600-29677000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr18:29674600-29677200	Genic enhancers	Primary B cells from cord blood	blood
29	chr18:29674600-29677200	Enhancers	Fetal Brain Male	brain
30	chr18:29674600-29677400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr18:29674600-29677400	Enhancers	Liver	Liver
32	chr18:29674600-29677400	Enhancers	HepG2	liver
33	chr18:29674600-29680800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr18:29674600-29695600	Weak transcription	Rectal Smooth Muscle	rectum
35	chr18:29674600-29703000	Weak transcription	Osteobl	bone
36	chr18:29674600-29705600	Weak transcription	NHLF	lung
37	chr18:29674800-29677000	Genic enhancers	Monocytes-CD14+_RO01746	blood
38	chr18:29674800-29689200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr18:29675000-29677000	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
40	chr18:29675000-29677200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr18:29675000-29680800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr18:29675000-29692200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr18:29675000-29694600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr18:29675000-29717200	Weak transcription	NH-A	brain
45	chr18:29675200-29677000	Strong transcription	HUES64 Cell Line	embryonic stem cell
46	chr18:29675200-29677000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr18:29675200-29677000	Genic enhancers	Primary mononuclear cells fromperipheralblood	Blood
48	chr18:29675200-29680000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
49	chr18:29675200-29692800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr18:29675400-29677400	Genic enhancers	K562	blood

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