Variant report

Variant	rs35109359
Chromosome Location	chr2:99387226-99387227
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:99344922..99348721-chr2:99382903..99389092,6	MCF-7	breast:
2	chr2:99385437..99388262-chr2:99414976..99417069,2	MCF-7	breast:
3	chr2:99345368..99349321-chr2:99385005..99390572,6	MCF-7	breast:
4	chr2:99384896..99387607-chr2:99394803..99397192,2	MCF-7	breast:
5	chr2:99386151..99388080-chr2:99407312..99410170,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000071073	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10182043	0.81[EUR][1000 genomes]
rs10202643	0.85[EUR][1000 genomes]
rs17021941	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17756034	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35077008	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35107109	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35929117	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6542837	0.80[EUR][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	nsv1011278	chr2:99280928-99638376	Weak transcription Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv535835	chr2:99280928-99638376	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:99373800-99388000	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr2:99378400-99389400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr2:99378800-99388200	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr2:99379200-99388200	Weak transcription	Brain Substantia Nigra	brain
5	chr2:99379400-99388400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr2:99380600-99387400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr2:99380600-99387400	Weak transcription	Adipose Nuclei	Adipose
8	chr2:99384400-99389800	Flanking Active TSS	Dnd41	blood
9	chr2:99384800-99388400	Enhancers	Placenta	Placenta
10	chr2:99385000-99388000	Enhancers	Pancreas	Pancrea
11	chr2:99385000-99389400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
12	chr2:99385200-99388200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr2:99385400-99388200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr2:99385600-99387400	Weak transcription	Spleen	Spleen
15	chr2:99385800-99387600	Weak transcription	Liver	Liver
16	chr2:99385800-99387600	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr2:99385800-99388200	Weak transcription	HMEC	breast
18	chr2:99385800-99394000	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr2:99385800-99410400	Weak transcription	Right Atrium	heart
20	chr2:99386000-99387800	Weak transcription	Brain Cingulate Gyrus	brain
21	chr2:99386000-99388400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr2:99386200-99389000	Flanking Active TSS	Fetal Thymus	thymus
23	chr2:99386200-99389200	Flanking Active TSS	Primary T cells fromperipheralblood	blood
24	chr2:99386200-99391600	Weak transcription	Fetal Brain Female	brain
25	chr2:99386400-99388000	Weak transcription	Brain Hippocampus Middle	brain
26	chr2:99386400-99389000	Active TSS	Rectal Mucosa Donor 29	rectum
27	chr2:99386600-99387400	Active TSS	Primary T killer naive cells fromperipheralblood	blood
28	chr2:99386600-99387400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr2:99386600-99387600	Active TSS	Primary T helper naive cells from peripheral blood	blood
30	chr2:99386600-99387600	Active TSS	Primary T killer memory cells from peripheral blood	blood
31	chr2:99386600-99387800	Enhancers	Monocytes-CD14+_RO01746	blood
32	chr2:99386600-99388200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr2:99386600-99388200	Weak transcription	Lung	lung
34	chr2:99386600-99391000	Weak transcription	Fetal Brain Male	brain
35	chr2:99386800-99387400	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
36	chr2:99386800-99387400	Active TSS	Primary T helper naive cells fromperipheralblood	blood
37	chr2:99386800-99387400	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
38	chr2:99386800-99387400	Active TSS	Thymus	Thymus
39	chr2:99386800-99387600	Weak transcription	Duodenum Mucosa	Duodenum
40	chr2:99386800-99387800	Weak transcription	Primary neutrophils fromperipheralblood	blood
41	chr2:99386800-99388000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
42	chr2:99386800-99388200	Weak transcription	HepG2	liver
43	chr2:99386800-99388400	Weak transcription	Gastric	stomach
44	chr2:99386800-99391400	Weak transcription	Esophagus	oesophagus
45	chr2:99387000-99387400	Enhancers	Primary T cells from cord blood	blood
46	chr2:99387000-99387400	Weak transcription	Primary hematopoietic stem cells	blood
47	chr2:99387000-99387400	Active TSS	Primary T regulatory cells fromperipheralblood	blood
48	chr2:99387000-99387400	Weak transcription	Small Intestine	intestine
49	chr2:99387000-99387600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
50	chr2:99387000-99388600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links