Variant report

Variant	rs9407386
Chromosome Location	chr9:7785433-7785434
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:7785236..7787094-chr9:7798343..7800559,2	K562	blood:
2	chr9:7785236..7788053-chr9:7798343..7800585,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C9orf123-1	chr9:7785195-7787329	XLOC_007641

Variant related genes	Relation type
ENSG00000137038	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs182753	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs327752	0.86[EUR][1000 genomes]
rs7023847	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7857627	0.81[EUR][1000 genomes]
rs9299055	0.80[EUR][1000 genomes]
rs9407385	0.81[EUR][1000 genomes]
rs9408706	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033077	chr9:7358832-7990735	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv539977	chr9:7358832-7990735	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers 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	17 gene(s)	inside rSNPs	diseases
3	nsv613266	chr9:7588854-7901308	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv995116	chr9:7682729-8065192	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv892212	chr9:7742476-7787532	Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv892213	chr9:7770942-7856992	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv892214	chr9:7774180-7822486	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:7778000-7787000	Weak transcription	Brain Germinal Matrix	brain
2	chr9:7778000-7792400	Weak transcription	Psoas Muscle	Psoas
3	chr9:7778200-7790200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr9:7780200-7786400	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr9:7780400-7786200	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr9:7780400-7792600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr9:7780600-7792600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr9:7780800-7785600	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr9:7780800-7788000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr9:7780800-7793400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr9:7780800-7794400	Weak transcription	Osteobl	bone
12	chr9:7781000-7786600	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr9:7781000-7792400	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr9:7781000-7794600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr9:7781200-7791600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr9:7781400-7786000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr9:7781600-7786000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr9:7781800-7785800	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr9:7781800-7794400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr9:7782000-7786600	Weak transcription	Primary B cells from cord blood	blood
21	chr9:7782200-7790600	Weak transcription	Fetal Muscle Trunk	muscle
22	chr9:7782600-7794600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr9:7782800-7789600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr9:7783000-7786000	Weak transcription	Primary T cells from cord blood	blood
25	chr9:7783000-7786800	Weak transcription	Fetal Muscle Leg	muscle
26	chr9:7783000-7790400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr9:7783000-7794200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr9:7783200-7790600	Weak transcription	Dnd41	blood
29	chr9:7783200-7792000	Weak transcription	Primary hematopoietic stem cells	blood
30	chr9:7783400-7792600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr9:7783400-7794600	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr9:7783800-7786000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr9:7783800-7794600	Weak transcription	A549	lung
34	chr9:7783800-7794800	Weak transcription	HSMMtube	muscle
35	chr9:7784000-7785600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr9:7784000-7790800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr9:7784000-7793000	Weak transcription	Primary T cells fromperipheralblood	blood
38	chr9:7784200-7786000	Weak transcription	Fetal Thymus	thymus
39	chr9:7784200-7794400	Weak transcription	HUVEC	blood vessel
40	chr9:7784400-7786000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr9:7784400-7789200	Strong transcription	Skeletal Muscle Female	skeletal muscle
42	chr9:7784400-7794400	Weak transcription	Fetal Brain Female	brain
43	chr9:7784600-7786400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr9:7784600-7787000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr9:7784600-7792000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr9:7784800-7786000	Weak transcription	Thymus	Thymus
47	chr9:7784800-7787600	Weak transcription	Primary B cells from peripheral blood	blood
48	chr9:7784800-7790800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr9:7785000-7790000	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr9:7785000-7790200	Weak transcription	Fetal Heart	heart

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