Variant report

Variant	rs1412108
Chromosome Location	chr9:13208136-13208137
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10733255	0.81[AFR][1000 genomes]
rs10738330	1.00[YRI][hapmap]
rs10809914	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs1118320	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs1331669	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs1331671	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs1412107	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs1556422	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs1576686	0.87[AFR][1000 genomes]
rs1888745	1.00[YRI][hapmap]
rs1999394	0.81[AFR][1000 genomes]
rs4740546	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs4740549	0.82[YRI][hapmap]
rs7856615	0.83[YRI][hapmap];0.81[AFR][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	nsv892578	chr9:12942956-13485035	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv892583	chr9:13166139-13350478	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:13121600-13225200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr9:13135400-13223600	Weak transcription	Lung	lung
3	chr9:13145400-13228600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr9:13164200-13248600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr9:13164200-13258800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr9:13182200-13226800	Weak transcription	Fetal Brain Male	brain
7	chr9:13186400-13212000	Weak transcription	Gastric	stomach
8	chr9:13188000-13220800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr9:13189000-13221000	Weak transcription	NHLF	lung
10	chr9:13189000-13268600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr9:13190400-13237800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr9:13195400-13223400	Weak transcription	Fetal Stomach	stomach
13	chr9:13199400-13210600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr9:13201400-13208400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr9:13202800-13215600	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr9:13202800-13220800	Weak transcription	Placenta	Placenta
17	chr9:13202800-13226400	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr9:13202800-13250600	Weak transcription	Pancreas	Pancrea
19	chr9:13202800-13250800	Weak transcription	Psoas Muscle	Psoas
20	chr9:13203000-13209000	Weak transcription	Fetal Heart	heart
21	chr9:13203000-13209400	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr9:13203000-13223600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr9:13203000-13224800	Weak transcription	Primary hematopoietic stem cells	blood
24	chr9:13203000-13225400	Weak transcription	Brain Anterior Caudate	brain
25	chr9:13203000-13261000	Weak transcription	Colon Smooth Muscle	Colon
26	chr9:13203200-13209400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr9:13203200-13214400	Weak transcription	Fetal Brain Female	brain
28	chr9:13203400-13208800	Weak transcription	Adipose Nuclei	Adipose
29	chr9:13203400-13211000	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr9:13203400-13214000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr9:13203400-13223600	Weak transcription	Ovary	ovary
32	chr9:13203400-13224800	Weak transcription	Rectal Smooth Muscle	rectum
33	chr9:13203400-13226400	Weak transcription	Right Ventricle	heart
34	chr9:13203400-13247000	Weak transcription	Brain Cingulate Gyrus	brain
35	chr9:13203600-13210400	Weak transcription	Fetal Intestine Small	intestine
36	chr9:13203600-13210600	Weak transcription	Fetal Intestine Large	intestine
37	chr9:13203600-13211200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr9:13203600-13216200	Weak transcription	Brain Substantia Nigra	brain
39	chr9:13203600-13219600	Weak transcription	HSMMtube	muscle
40	chr9:13203600-13245600	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr9:13203800-13220800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr9:13204000-13215000	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr9:13204000-13241800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr9:13204000-13249200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr9:13204200-13244600	Weak transcription	HepG2	liver
46	chr9:13204400-13212400	Weak transcription	Fetal Muscle Leg	muscle
47	chr9:13204400-13214400	Weak transcription	Brain Germinal Matrix	brain
48	chr9:13204400-13221800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr9:13204600-13214000	Weak transcription	Cortex derived primary cultured neurospheres	brain
50	chr9:13204800-13213600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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