Variant report

Variant	rs4744002
Chromosome Location	chr9:92762139-92762140
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:92761640..92763658-chr9:92766942..92769443,2	MCF-7	breast:
2	chr9:92758301..92760371-chr9:92760953..92763123,2	MCF-7	breast:
3	chr9:92216749..92221414-chr9:92756839..92763409,10	MCF-7	breast:
4	chr9:92218340..92220049-chr9:92760293..92762561,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000130222	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10991740	0.84[EUR][1000 genomes]
rs10991742	0.82[EUR][1000 genomes]
rs10991751	0.84[EUR][1000 genomes]
rs10991758	0.81[EUR][1000 genomes]
rs10991799	0.81[EUR][1000 genomes]
rs10991819	0.82[EUR][1000 genomes]
rs10993742	0.82[EUR][1000 genomes]
rs10993743	0.82[EUR][1000 genomes]
rs12685019	0.85[ASN][1000 genomes]
rs12685781	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13299384	0.81[EUR][1000 genomes]
rs16906087	0.84[EUR][1000 genomes]
rs16906093	0.82[EUR][1000 genomes]
rs34473649	0.81[EUR][1000 genomes]
rs34954114	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4744025	0.81[EUR][1000 genomes]
rs4744027	0.81[EUR][1000 genomes]
rs4744499	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4744515	0.80[EUR][1000 genomes]
rs62558472	0.82[EUR][1000 genomes]
rs62558473	0.82[EUR][1000 genomes]
rs662867	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7027794	0.93[ASN][1000 genomes]
rs9650758	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][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	nsv893561	chr9:92732368-92802101	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv482303	chr9:92752928-92890226	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:92753600-92765400	Enhancers	Fetal Intestine Large	intestine
2	chr9:92754000-92765400	Enhancers	Fetal Intestine Small	intestine
3	chr9:92757200-92762400	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr9:92757400-92770000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr9:92757600-92762200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr9:92757600-92764200	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr9:92757600-92770000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr9:92757800-92762200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr9:92758000-92762200	Weak transcription	Fetal Kidney	kidney
10	chr9:92758200-92762200	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr9:92758800-92767600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr9:92760800-92762600	Enhancers	Esophagus	oesophagus
13	chr9:92760800-92766000	Enhancers	Fetal Brain Male	brain
14	chr9:92761000-92762200	Enhancers	Fetal Heart	heart
15	chr9:92761000-92762200	Enhancers	Fetal Lung	lung
16	chr9:92761000-92762600	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr9:92761000-92762600	Enhancers	Pancreas	Pancrea
18	chr9:92761200-92762600	Enhancers	HMEC	breast
19	chr9:92761200-92763600	Enhancers	Small Intestine	intestine
20	chr9:92761200-92765400	Enhancers	Fetal Thymus	thymus
21	chr9:92761200-92767400	Enhancers	Fetal Muscle Leg	muscle
22	chr9:92761400-92762400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
23	chr9:92761600-92762200	Enhancers	Primary T cells from cord blood	blood
24	chr9:92761600-92762200	Enhancers	Primary hematopoietic stem cells short term culture	blood
25	chr9:92761600-92762200	Enhancers	Aorta	Aorta
26	chr9:92761600-92762200	Enhancers	Brain Cingulate Gyrus	brain
27	chr9:92761600-92762400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr9:92761600-92762400	Enhancers	HUES48 Cell Line	embryonic stem cell
29	chr9:92761600-92762400	Enhancers	Dnd41	blood
30	chr9:92761600-92762600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr9:92761600-92762600	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
32	chr9:92761600-92762600	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
33	chr9:92761600-92762600	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
34	chr9:92761600-92762600	Enhancers	Gastric	stomach
35	chr9:92761600-92762600	Enhancers	Left Ventricle	heart
36	chr9:92761600-92762600	Enhancers	Ovary	ovary
37	chr9:92761600-92762600	Enhancers	Placenta Amnion	Placenta Amnion
38	chr9:92761600-92762600	Enhancers	Psoas Muscle	Psoas
39	chr9:92761600-92762600	Enhancers	Right Atrium	heart
40	chr9:92761600-92762600	Flanking Active TSS	GM12878-XiMat	blood
41	chr9:92761600-92762800	Flanking Active TSS	Liver	Liver
42	chr9:92761600-92762800	Enhancers	Spleen	Spleen
43	chr9:92761600-92763000	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
44	chr9:92761600-92763600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr9:92761600-92763600	Flanking Active TSS	Stomach Smooth Muscle	stomach
46	chr9:92761600-92764600	Enhancers	Placenta	Placenta
47	chr9:92761600-92765200	Enhancers	Right Ventricle	heart
48	chr9:92761600-92765200	Enhancers	Sigmoid Colon	Sigmoid Colon
49	chr9:92761600-92765600	Enhancers	Lung	lung
50	chr9:92761600-92765800	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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