Variant report

Variant	rs985801
Chromosome Location	chr9:13225508-13225509
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1038978	0.81[YRI][hapmap]
rs1041507	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10733258	0.81[AFR][1000 genomes]
rs1330127	1.00[AMR][1000 genomes]
rs1330137	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1412111	0.91[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1537206	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1999396	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2131894	1.00[AMR][1000 genomes]
rs4469558	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7044288	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7047484	1.00[AMR][1000 genomes]
rs7872990	1.00[AMR][1000 genomes]
rs7875612	1.00[AMR][1000 genomes]
rs986481	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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
3	nsv892584	chr9:13214871-13350478	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 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	chr9:13145400-13228600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr9:13164200-13248600	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr9:13164200-13258800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr9:13182200-13226800	Weak transcription	Fetal Brain Male	brain
5	chr9:13189000-13268600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr9:13190400-13237800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr9:13202800-13226400	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr9:13202800-13250600	Weak transcription	Pancreas	Pancrea
9	chr9:13202800-13250800	Weak transcription	Psoas Muscle	Psoas
10	chr9:13203000-13261000	Weak transcription	Colon Smooth Muscle	Colon
11	chr9:13203400-13226400	Weak transcription	Right Ventricle	heart
12	chr9:13203400-13247000	Weak transcription	Brain Cingulate Gyrus	brain
13	chr9:13203600-13245600	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr9:13204000-13241800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr9:13204000-13249200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr9:13204200-13244600	Weak transcription	HepG2	liver
17	chr9:13206000-13229200	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr9:13206000-13247000	Weak transcription	Brain Angular Gyrus	brain
19	chr9:13207600-13228200	Weak transcription	Esophagus	oesophagus
20	chr9:13208200-13265000	Weak transcription	Aorta	Aorta
21	chr9:13209800-13266000	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr9:13214200-13226600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
23	chr9:13214400-13227600	Weak transcription	Fetal Kidney	kidney
24	chr9:13215800-13233200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr9:13216600-13247000	Weak transcription	Fetal Brain Female	brain
26	chr9:13217000-13226600	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr9:13217000-13244200	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr9:13218200-13231800	Weak transcription	NH-A	brain
29	chr9:13219400-13226200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr9:13219600-13232800	Weak transcription	NHDF-Ad	bronchial
31	chr9:13219800-13265600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr9:13220000-13226000	Weak transcription	Left Ventricle	heart
33	chr9:13220400-13225800	Weak transcription	Fetal Heart	heart
34	chr9:13221600-13241600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr9:13221600-13244200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr9:13221600-13245400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr9:13221800-13242800	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr9:13221800-13246600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr9:13222200-13229400	Strong transcription	HSMMtube	muscle
40	chr9:13222400-13227400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr9:13222400-13229600	Weak transcription	HUVEC	blood vessel
42	chr9:13222600-13238000	Weak transcription	Adipose Nuclei	Adipose
43	chr9:13222600-13246200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
44	chr9:13223400-13226400	Strong transcription	Stomach Smooth Muscle	stomach
45	chr9:13223800-13239600	Weak transcription	HSMM	muscle
46	chr9:13224000-13226400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr9:13224000-13241400	Weak transcription	Ovary	ovary
48	chr9:13224000-13242200	Weak transcription	Fetal Stomach	stomach
49	chr9:13224000-13264600	Weak transcription	Osteobl	bone
50	chr9:13224200-13241800	Weak transcription	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links