Variant report

Variant	rs2675279
Chromosome Location	chr9:96945411-96945412
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96943921..96946821-chr9:96947982..96950934,2	MCF-7	breast:
2	chr9:96858833..96861735-chr9:96944084..96946628,2	K562	blood:
3	chr9:96942774..96945747-chr9:96959750..96962534,2	K562	blood:
4	chr9:96762359..96764035-chr9:96943994..96946319,2	K562	blood:
5	chr9:96927843..96930054-chr9:96943540..96946724,4	MCF-7	breast:
6	chr9:96940341..96943331-chr9:96943637..96946113,2	MCF-7	breast:
7	chr9:96934105..96937234-chr9:96943114..96945589,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000269946	Chromatin interaction
ENSG00000199133	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10125839	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10739972	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11792471	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1421134	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1833404	1.00[ASN][1000 genomes]
rs2026618	1.00[ASN][1000 genomes]
rs4744322	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7025880	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7045890	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7046438	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7865735	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9299415	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[ASN][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	nsv482457	chr9:96813852-96996170	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	217 gene(s)	inside rSNPs	diseases
2	nsv831655	chr9:96834042-97042009	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	218 gene(s)	inside rSNPs	diseases
3	esv3394266	chr9:96935210-97045514	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	195 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96929800-96948400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:96931400-96965600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr9:96937200-96959400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr9:96937800-96946600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr9:96938200-96949000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr9:96938400-96947400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr9:96939400-96948400	Weak transcription	Brain Germinal Matrix	brain
8	chr9:96939600-96947200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr9:96939600-96947600	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr9:96939600-96948000	Weak transcription	Fetal Brain Female	brain
11	chr9:96939600-96949400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr9:96939600-96950600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr9:96939800-96946800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr9:96939800-96946800	Strong transcription	Muscle Satellite Cultured Cells	--
15	chr9:96939800-96947200	Weak transcription	Esophagus	oesophagus
16	chr9:96939800-96947400	Strong transcription	Osteobl	bone
17	chr9:96939800-96948400	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr9:96939800-96960800	Weak transcription	NHDF-Ad	bronchial
19	chr9:96940000-96946800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr9:96940000-96949200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr9:96940400-96945600	Weak transcription	Primary T helper cells fromperipheralblood	blood
22	chr9:96940400-96947800	Weak transcription	Duodenum Mucosa	Duodenum
23	chr9:96940400-96955600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr9:96940600-96947200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr9:96940800-96950400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr9:96941000-96945800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr9:96941200-96946800	Strong transcription	Fetal Muscle Trunk	muscle
28	chr9:96941400-96959400	Weak transcription	Spleen	Spleen
29	chr9:96941600-96947600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr9:96941800-96947200	Weak transcription	Dnd41	blood
31	chr9:96941800-96947200	Strong transcription	HSMM	muscle
32	chr9:96941800-96947600	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr9:96942000-96945600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr9:96942000-96946000	Strong transcription	Thymus	Thymus
35	chr9:96942000-96947200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr9:96942200-96950000	Weak transcription	Monocytes-CD14+_RO01746	blood
37	chr9:96942200-96950600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr9:96942400-96945600	Weak transcription	Placenta	Placenta
39	chr9:96942400-96947400	Weak transcription	Primary T helper cells PMA-I stimulated	--
40	chr9:96942400-96947600	Weak transcription	HepG2	liver
41	chr9:96942400-96948400	Weak transcription	Fetal Lung	lung
42	chr9:96942400-96949400	Weak transcription	A549	lung
43	chr9:96942400-96949800	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr9:96942400-96953200	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr9:96942400-96957600	Weak transcription	Colon Smooth Muscle	Colon
46	chr9:96942400-96964000	Weak transcription	Rectal Smooth Muscle	rectum
47	chr9:96942600-96945800	Strong transcription	Primary hematopoietic stem cells	blood
48	chr9:96942600-96946000	Weak transcription	NH-A	brain
49	chr9:96943000-96945600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr9:96943000-96945600	Enhancers	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links