Variant report

Variant	rs4744402
Chromosome Location	chr9:97669808-97669809
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97580281..97582910-chr9:97669782..97672711,3	MCF-7	breast:
2	chr9:97668825..97671270-chr9:97677329..97679201,2	MCF-7	breast:
3	chr9:97668411..97670589-chr9:97765288..97767393,2	MCF-7	breast:
4	chr9:97577751..97580681-chr9:97667871..97670064,2	MCF-7	breast:
5	chr9:97667630..97670627-chr9:97680732..97685586,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10125566	0.86[AMR][1000 genomes]
rs10217441	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10732407	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10739988	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10739990	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10761362	0.84[AMR][1000 genomes]
rs10761363	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10821411	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10993386	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1113967	0.86[AMR][1000 genomes]
rs12553916	0.84[AFR][1000 genomes]
rs1382411	0.81[AFR][1000 genomes]
rs1382412	0.81[AFR][1000 genomes]
rs1542107	0.86[AMR][1000 genomes]
rs1542108	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16911856	0.81[AFR][1000 genomes]
rs191654	0.84[AFR][1000 genomes]
rs2119953	0.86[AMR][1000 genomes]
rs2406897	0.86[AMR][1000 genomes]
rs2406898	0.86[AMR][1000 genomes]
rs242260	0.88[AFR][1000 genomes]
rs2675168	0.84[AFR][1000 genomes]
rs2897523	0.86[AMR][1000 genomes]
rs356128	0.88[AFR][1000 genomes]
rs356136	0.88[AFR][1000 genomes]
rs356139	0.88[AFR][1000 genomes]
rs356148	0.88[AFR][1000 genomes]
rs356149	0.84[AFR][1000 genomes]
rs365465	0.84[AFR][1000 genomes]
rs3847311	0.84[AMR][1000 genomes]
rs3886568	0.86[AMR][1000 genomes]
rs3887267	0.84[AFR][1000 genomes]
rs3910730	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs397783	0.84[AFR][1000 genomes]
rs397806	0.84[AFR][1000 genomes]
rs41316526	0.81[AFR][1000 genomes]
rs422502	0.84[AFR][1000 genomes]
rs4332191	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs438742	0.88[AFR][1000 genomes]
rs448899	0.84[AFR][1000 genomes]
rs457795	0.88[AFR][1000 genomes]
rs4743968	0.81[AFR][1000 genomes]
rs4743972	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4743973	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4744389	0.86[AMR][1000 genomes]
rs58281499	0.84[AFR][1000 genomes]
rs60120	0.84[AFR][1000 genomes]
rs61086657	0.84[AFR][1000 genomes]
rs6479578	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6479579	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6479581	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6479582	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6479583	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs66642068	0.81[AFR][1000 genomes]
rs66710673	0.84[AFR][1000 genomes]
rs66863985	0.81[AFR][1000 genomes]
rs67208365	0.84[AFR][1000 genomes]
rs68090960	0.88[AFR][1000 genomes]
rs68091393	0.84[AFR][1000 genomes]
rs7019602	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7022963	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7025100	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7038891	0.81[AFR][1000 genomes]
rs7044371	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7341710	0.88[AFR][1000 genomes]
rs73538177	0.81[AFR][1000 genomes]
rs7855781	0.81[AFR][1000 genomes]
rs7864389	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7867856	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7869736	0.86[AMR][1000 genomes]
rs894426	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs894427	0.86[AMR][1000 genomes]
rs9409589	0.88[AFR][1000 genomes]
rs9409805	0.84[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97633400-97671800	Weak transcription	Esophagus	oesophagus
2	chr9:97660800-97702400	Weak transcription	Primary B cells from cord blood	blood
3	chr9:97661600-97686200	Weak transcription	Primary T cells from cord blood	blood
4	chr9:97662400-97678600	Enhancers	Brain Substantia Nigra	brain
5	chr9:97662600-97670000	Weak transcription	Fetal Intestine Small	intestine
6	chr9:97662600-97680400	Enhancers	Brain Hippocampus Middle	brain
7	chr9:97662800-97670000	Weak transcription	Fetal Intestine Large	intestine
8	chr9:97663400-97671200	Enhancers	HepG2	liver
9	chr9:97664800-97670000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr9:97664800-97670000	Weak transcription	Rectal Smooth Muscle	rectum
11	chr9:97664800-97671800	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr9:97664800-97672000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr9:97664800-97672200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr9:97664800-97673400	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr9:97664800-97673400	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr9:97664800-97674200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr9:97665200-97674200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr9:97665400-97674200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr9:97666000-97672000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr9:97666000-97678600	Enhancers	Brain Cingulate Gyrus	brain
21	chr9:97666600-97674400	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr9:97667200-97670200	Weak transcription	NH-A	brain
23	chr9:97667400-97670400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr9:97667400-97674600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr9:97667800-97675200	Enhancers	Brain Anterior Caudate	brain
26	chr9:97668000-97670000	Weak transcription	NHLF	lung
27	chr9:97668000-97670400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr9:97668000-97670400	Enhancers	A549	lung
29	chr9:97668000-97672800	Weak transcription	Brain Germinal Matrix	brain
30	chr9:97668200-97671000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
31	chr9:97668400-97670800	Enhancers	Ovary	ovary
32	chr9:97668400-97670800	Enhancers	Pancreas	Pancrea
33	chr9:97668400-97671200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr9:97668800-97671200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr9:97668800-97672000	Enhancers	Brain Inferior Temporal Lobe	brain
36	chr9:97669000-97670000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr9:97669000-97670000	Enhancers	Fetal Thymus	thymus
38	chr9:97669000-97670000	Enhancers	Gastric	stomach
39	chr9:97669000-97670400	Enhancers	HUVEC	blood vessel
40	chr9:97669000-97670600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr9:97669000-97670600	Enhancers	Left Ventricle	heart
42	chr9:97669000-97670800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr9:97669000-97670800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
44	chr9:97669000-97670800	Enhancers	Fetal Kidney	kidney
45	chr9:97669000-97670800	Enhancers	Placenta	Placenta
46	chr9:97669000-97670800	Enhancers	Stomach Smooth Muscle	stomach
47	chr9:97669000-97671000	Enhancers	Breast Myoepithelial Primary Cells	Breast
48	chr9:97669000-97671000	Enhancers	Brain Angular Gyrus	brain
49	chr9:97669000-97671200	Enhancers	HSMM	muscle
50	chr9:97669000-97671600	Enhancers	Fetal Muscle Leg	muscle

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