Variant report

Variant	rs10188909
Chromosome Location	chr2:173327032-173327033
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:173036822..173037869-chr2:173326506..173327964,7	K562	blood:
2	chr2:173139213..173140063-chr2:173326830..173327770,2	MCF-7	breast:
3	chr2:173305651..173308111-chr2:173326516..173329013,2	MCF-7	breast:
4	chr2:172991741..172992647-chr2:173326514..173327387,2	MCF-7	breast:
5	chr2:173139130..173140223-chr2:173326888..173327510,3	MCF-7	breast:
6	chr2:173320023..173322995-chr2:173325583..173327892,3	MCF-7	breast:
7	chr2:173064966..173065861-chr2:173326898..173327413,2	K562	blood:
8	chr2:173290224..173292670-chr2:173326209..173328400,2	MCF-7	breast:
9	chr2:173036872..173037875-chr2:173325699..173327479,12	MCF-7	breast:
10	chr2:173036829..173037908-chr2:173326699..173327718,4	MCF-7	breast:
11	chr2:173291905..173293015-chr2:173326410..173327479,3	MCF-7	breast:
12	chr2:173066119..173066645-chr2:173326492..173327358,2	MCF-7	breast:
13	chr2:173292604..173293609-chr2:173326453..173327452,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000226963	Chromatin interaction
ENSG00000091409	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10165273	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10165340	1.00[CHB][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10202463	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11901314	0.85[CHB][hapmap];0.94[ASN][1000 genomes]
rs13387469	0.88[ASN][1000 genomes]
rs13430568	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16860422	0.94[ASN][1000 genomes]
rs16860435	0.94[ASN][1000 genomes]
rs1950099	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2701267	0.94[ASN][1000 genomes]
rs2737081	0.94[ASN][1000 genomes]
rs59360025	0.94[ASN][1000 genomes]
rs59979740	0.94[ASN][1000 genomes]
rs6755175	0.85[CHB][hapmap];0.94[ASN][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	nsv533927	chr2:173161637-173796894	Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:173319200-173330600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr2:173320600-173327200	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr2:173321000-173328000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr2:173321200-173327400	Weak transcription	Small Intestine	intestine
5	chr2:173321400-173356000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr2:173322600-173327200	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr2:173322600-173327400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr2:173323200-173328400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr2:173323400-173329800	Weak transcription	HSMMtube	muscle
10	chr2:173324000-173330200	Weak transcription	Psoas Muscle	Psoas
11	chr2:173324400-173327200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr2:173324400-173328400	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr2:173324400-173328600	Enhancers	ES-I3 Cell Line	embryonic stem cell
14	chr2:173324400-173329600	Flanking Active TSS	Primary T cells from cord blood	blood
15	chr2:173324400-173330600	Enhancers	HUVEC	blood vessel
16	chr2:173324600-173330400	Enhancers	Primary hematopoietic stem cells	blood
17	chr2:173324800-173327800	Enhancers	Brain Anterior Caudate	brain
18	chr2:173325400-173328000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
19	chr2:173325400-173329400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
20	chr2:173325600-173327200	Enhancers	Liver	Liver
21	chr2:173325600-173328000	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
22	chr2:173325600-173328600	Enhancers	Monocytes-CD14+_RO01746	blood
23	chr2:173325600-173328800	Enhancers	Adipose Nuclei	Adipose
24	chr2:173325800-173327400	Enhancers	Brain Hippocampus Middle	brain
25	chr2:173325800-173328200	Enhancers	HUES64 Cell Line	embryonic stem cell
26	chr2:173325800-173328200	Enhancers	iPS-15b Cell Line	embryonic stem cell
27	chr2:173325800-173328800	Enhancers	iPS-18 Cell Line	embryonic stem cell
28	chr2:173325800-173328800	Enhancers	iPS-20b Cell Line	embryonic stem cell
29	chr2:173325800-173329200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
30	chr2:173325800-173329200	Weak transcription	Hela-S3	cervix
31	chr2:173326000-173327200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
32	chr2:173326000-173327200	Flanking Active TSS	HMEC	breast
33	chr2:173326000-173327800	Enhancers	Brain Substantia Nigra	brain
34	chr2:173326000-173328000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
35	chr2:173326000-173328800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
36	chr2:173326000-173329800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr2:173326000-173330000	Enhancers	HepG2	liver
38	chr2:173326000-173330600	Enhancers	Primary B cells from peripheral blood	blood
39	chr2:173326000-173330600	Enhancers	Fetal Intestine Large	intestine
40	chr2:173326000-173330600	Enhancers	Fetal Thymus	thymus
41	chr2:173326000-173330600	Enhancers	Sigmoid Colon	Sigmoid Colon
42	chr2:173326200-173327200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr2:173326200-173327200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr2:173326200-173327200	Enhancers	Brain Inferior Temporal Lobe	brain
45	chr2:173326200-173327200	Enhancers	Placenta Amnion	Placenta Amnion
46	chr2:173326200-173327400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr2:173326200-173327800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr2:173326200-173327800	Flanking Active TSS	Colonic Mucosa	Colon
49	chr2:173326200-173328000	Enhancers	HUES48 Cell Line	embryonic stem cell
50	chr2:173326200-173328000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links