Variant report

Variant	rs2795486
Chromosome Location	chr9:100903168-100903169
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:100902736..100906397-chr9:100952315..100956242,4	MCF-7	breast:
2	chr9:100895795..100898017-chr9:100901396..100904317,2	MCF-7	breast:
3	chr9:100899669..100901524-chr9:100901632..100903566,2	MCF-7	breast:
4	chr9:100901779..100904656-chr9:100906952..100909811,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000106789	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10985425	1.00[CHB][hapmap]
rs12554318	1.00[ASN][1000 genomes]
rs12554940	1.00[ASN][1000 genomes]
rs2795488	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2985030	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34709283	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34891516	1.00[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	nsv482635	chr9:100775549-100953239	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv893613	chr9:100885779-100943397	Weak transcription Enhancers Bivalent Enhancer Genic enhancers Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2795486	LOC286359	cis	parietal	SCAN
rs2795486	ALG2	cis	parietal	SCAN

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100882000-100917000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr9:100882200-100905600	Weak transcription	Rectal Smooth Muscle	rectum
3	chr9:100882600-100915000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr9:100883000-100926400	Weak transcription	Small Intestine	intestine
5	chr9:100883800-100920000	Weak transcription	Primary hematopoietic stem cells	blood
6	chr9:100884200-100908200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr9:100884200-100909600	Weak transcription	Right Atrium	heart
8	chr9:100884400-100904200	Strong transcription	Fetal Intestine Small	intestine
9	chr9:100884400-100921000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr9:100885200-100926200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr9:100889200-100930800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr9:100891000-100904600	Weak transcription	HMEC	breast
13	chr9:100891000-100920600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr9:100891000-100930800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr9:100892200-100920800	Weak transcription	Fetal Brain Female	brain
16	chr9:100892200-100926200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr9:100892400-100908200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr9:100893400-100910600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr9:100895600-100904400	Weak transcription	Esophagus	oesophagus
20	chr9:100895800-100908200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr9:100896000-100904000	Weak transcription	GM12878-XiMat	blood
22	chr9:100896000-100905200	Weak transcription	Colonic Mucosa	Colon
23	chr9:100896000-100905400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr9:100896000-100907000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr9:100896000-100907800	Weak transcription	Primary B cells from peripheral blood	blood
26	chr9:100896000-100931000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr9:100897000-100904200	Weak transcription	Liver	Liver
28	chr9:100897000-100904400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr9:100897200-100904400	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr9:100897400-100904400	Weak transcription	Lung	lung
31	chr9:100897400-100904400	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr9:100897400-100908200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr9:100897400-100917000	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr9:100897400-100918600	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr9:100897800-100904600	Weak transcription	Spleen	Spleen
36	chr9:100898200-100904400	Weak transcription	Fetal Thymus	thymus
37	chr9:100898400-100904400	Weak transcription	Gastric	stomach
38	chr9:100898400-100904400	Weak transcription	Stomach Mucosa	stomach
39	chr9:100898400-100904800	Weak transcription	Fetal Stomach	stomach
40	chr9:100898400-100916800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr9:100898400-100931200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr9:100898600-100904400	Weak transcription	Monocytes-CD14+_RO01746	blood
43	chr9:100899000-100904400	Weak transcription	HepG2	liver
44	chr9:100899000-100904600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr9:100899200-100906600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr9:100899200-100930600	Weak transcription	Primary T helper cells PMA-I stimulated	--
47	chr9:100899600-100904400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr9:100900000-100904400	Weak transcription	Rectal Mucosa Donor 29	rectum
49	chr9:100900000-100906600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr9:100900200-100911000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links