Variant report

Variant	rs2770838
Chromosome Location	chr9:98661915-98661916
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:98636799..98639182-chr9:98659870..98662837,3	MCF-7	breast:
2	chr9:98631788..98634188-chr9:98659492..98662197,2	K562	blood:
3	chr9:98644374..98646998-chr9:98660119..98662324,2	MCF-7	breast:
4	chr16:55447777..55449277-chr9:98661264..98663174,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000182150	Chromatin interaction
ENSG00000175611	Chromatin interaction

Extended variants
information (count: 4 )
Associated
traits (count: 1 )

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	nsv482884	chr9:98530027-98691937	Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv893599	chr9:98542410-98991254	Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
3	nsv893600	chr9:98608989-98775459	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
4	esv1801890	chr9:98660433-98701801	Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Enhancers Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2770838	C9orf130	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98638800-98702200	Weak transcription	Pancreas	Pancrea
2	chr9:98639400-98677800	Weak transcription	Placenta	Placenta
3	chr9:98639400-98678000	Weak transcription	Ovary	ovary
4	chr9:98639600-98678000	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr9:98639800-98664200	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr9:98639800-98677800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr9:98640000-98663600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr9:98640000-98678200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr9:98640000-98680600	Weak transcription	Colonic Mucosa	Colon
10	chr9:98640000-98685600	Weak transcription	Right Ventricle	heart
11	chr9:98640000-98718600	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr9:98640200-98678200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr9:98640400-98664800	Weak transcription	Brain Substantia Nigra	brain
14	chr9:98640400-98677800	Weak transcription	Psoas Muscle	Psoas
15	chr9:98640600-98678000	Weak transcription	Brain Cingulate Gyrus	brain
16	chr9:98642200-98663600	Weak transcription	Hela-S3	cervix
17	chr9:98642600-98678000	Weak transcription	Colon Smooth Muscle	Colon
18	chr9:98642600-98680600	Weak transcription	Rectal Smooth Muscle	rectum
19	chr9:98642800-98668200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr9:98642800-98681800	Weak transcription	Fetal Kidney	kidney
21	chr9:98644200-98670600	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr9:98644400-98678400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr9:98644400-98685600	Weak transcription	Gastric	stomach
24	chr9:98644600-98670200	Weak transcription	Left Ventricle	heart
25	chr9:98644600-98678000	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr9:98644600-98690800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr9:98644800-98677400	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr9:98645000-98662400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr9:98645600-98684200	Weak transcription	Brain Hippocampus Middle	brain
30	chr9:98645800-98670400	Weak transcription	Brain Germinal Matrix	brain
31	chr9:98645800-98672600	Weak transcription	HUVEC	blood vessel
32	chr9:98645800-98678400	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr9:98645800-98702200	Weak transcription	Aorta	Aorta
34	chr9:98646000-98680200	Weak transcription	K562	blood
35	chr9:98646400-98663800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr9:98646600-98667800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr9:98646600-98670000	Weak transcription	Adipose Nuclei	Adipose
38	chr9:98646600-98681800	Weak transcription	HSMMtube	muscle
39	chr9:98646800-98672400	Weak transcription	NHDF-Ad	bronchial
40	chr9:98647400-98672800	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr9:98647600-98678000	Weak transcription	Stomach Smooth Muscle	stomach
42	chr9:98647800-98677400	Weak transcription	HUES64 Cell Line	embryonic stem cell
43	chr9:98648200-98662000	Weak transcription	Duodenum Mucosa	Duodenum
44	chr9:98648200-98666200	Weak transcription	HSMM	muscle
45	chr9:98648200-98677800	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr9:98648200-98678600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
47	chr9:98649000-98667800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr9:98649200-98670000	Weak transcription	Fetal Muscle Trunk	muscle
49	chr9:98649400-98670200	Weak transcription	Fetal Lung	lung
50	chr9:98649400-98676000	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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