Variant report

Variant	rs10815432
Chromosome Location	chr9:6416762-6416763
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:6412902..6414944-chr9:6415944..6418989,4	MCF-7	breast:
2	chr9:6415820..6417559-chr9:6421929..6423594,2	MCF-7	breast:
3	chr9:6415256..6417378-chr9:6441434..6444030,2	MCF-7	breast:
4	chr9:6413244..6414955-chr9:6415894..6417896,3	MCF-7	breast:
5	chr9:6412634..6415362-chr9:6415861..6419998,11	K562	blood:

Variant related genes	Relation type
ENSG00000147854	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10739098	0.81[ASN][1000 genomes]
rs10758784	0.87[AFR][1000 genomes]
rs10758785	0.81[ASN][1000 genomes]
rs10758786	0.85[AFR][1000 genomes]
rs10975582	0.81[ASN][1000 genomes]
rs10975583	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2065075	0.89[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948847	chr9:5712626-6417677	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1031086	chr9:5806949-6630686	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv539967	chr9:5806949-6630686	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv933124	chr9:6099101-6644738	Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv1029000	chr9:6188652-6687205	Enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
6	nsv1031459	chr9:6216913-6657192	Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv948562	chr9:6222553-6684955	Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
8	nsv1032350	chr9:6328167-6630686	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
9	nsv892160	chr9:6364449-6506038	Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
10	nsv892161	chr9:6364449-6523056	Enhancers Bivalent/Poised TSS Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
11	nsv831497	chr9:6377501-6612402	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10815432	C9orf38	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:6414400-6427400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:6414600-6439400	Weak transcription	Colonic Mucosa	Colon
3	chr9:6414600-6449000	Weak transcription	Gastric	stomach
4	chr9:6414600-6449200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr9:6414600-6451800	Weak transcription	Esophagus	oesophagus
6	chr9:6414600-6477800	Weak transcription	Placenta	Placenta
7	chr9:6414800-6422000	Weak transcription	Fetal Muscle Trunk	muscle
8	chr9:6415200-6417600	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr9:6415400-6417200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr9:6415400-6417400	Enhancers	Primary T cells fromperipheralblood	blood
11	chr9:6415400-6418800	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr9:6415400-6418800	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr9:6415400-6419400	Enhancers	Primary T killer memory cells from peripheral blood	blood
14	chr9:6415400-6419600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
15	chr9:6415400-6419600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
16	chr9:6415400-6425400	Weak transcription	Psoas Muscle	Psoas
17	chr9:6415400-6434000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr9:6415600-6416800	Weak transcription	Primary neutrophils fromperipheralblood	blood
19	chr9:6415600-6417000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr9:6415600-6417000	Weak transcription	Duodenum Mucosa	Duodenum
21	chr9:6415600-6417200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr9:6415600-6417200	Weak transcription	Primary hematopoietic stem cells	blood
23	chr9:6415600-6417200	Weak transcription	Brain Angular Gyrus	brain
24	chr9:6415600-6417200	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr9:6415600-6417200	Weak transcription	Brain Substantia Nigra	brain
26	chr9:6415600-6417200	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr9:6415600-6417200	Weak transcription	Fetal Lung	lung
28	chr9:6415600-6417200	Weak transcription	Rectal Smooth Muscle	rectum
29	chr9:6415600-6417200	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr9:6415600-6417200	Enhancers	HepG2	liver
31	chr9:6415600-6417200	Weak transcription	HSMMtube	muscle
32	chr9:6415600-6417200	Enhancers	Monocytes-CD14+_RO01746	blood
33	chr9:6415600-6417600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr9:6415600-6417600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr9:6415600-6417800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr9:6415600-6418000	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr9:6415600-6418600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr9:6415600-6418600	Weak transcription	Adipose Nuclei	Adipose
39	chr9:6415600-6419200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr9:6415600-6419400	Enhancers	Breast Myoepithelial Primary Cells	Breast
41	chr9:6415600-6419400	Enhancers	Primary B cells from cord blood	blood
42	chr9:6415600-6420800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr9:6415600-6421000	Weak transcription	Fetal Intestine Large	intestine
44	chr9:6415600-6422000	Weak transcription	Fetal Kidney	kidney
45	chr9:6415600-6422200	Weak transcription	Lung	lung
46	chr9:6415600-6423200	Weak transcription	Stomach Mucosa	stomach
47	chr9:6415600-6430000	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr9:6415600-6431000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr9:6415600-6441200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr9:6415600-6471400	Weak transcription	Aorta	Aorta

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