Variant report

Variant	rs2539872
Chromosome Location	chr2:210907892-210907893
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:210896066..210901290-chr2:210902199..210908006,8	K562	blood:
2	chr2:210895995..210897932-chr2:210907818..210910565,2	K562	blood:
3	chr2:210905570..210907259-chr2:210907746..210910468,2	K562	blood:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1111193	1.00[AMR][1000 genomes]
rs2539868	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2723221	0.88[AFR][1000 genomes]
rs57875655	1.00[AMR][1000 genomes]
rs58282165	1.00[AMR][1000 genomes]
rs58931716	1.00[AMR][1000 genomes]
rs6435553	0.82[AFR][1000 genomes]
rs73063910	1.00[AMR][1000 genomes]
rs73063916	1.00[AMR][1000 genomes]
rs73063929	1.00[AMR][1000 genomes]
rs73063940	1.00[AMR][1000 genomes]
rs73063945	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431969	chr2:210682494-211074494	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv1004426	chr2:210709999-211001680	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	esv1795338	chr2:210758078-211098113	Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	esv1802749	chr2:210905194-211255611	Strong transcription ZNF genes & repeats Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:210868000-210920000	Weak transcription	Spleen	Spleen
2	chr2:210871200-210911400	Weak transcription	Psoas Muscle	Psoas
3	chr2:210874000-210920800	Weak transcription	Fetal Heart	heart
4	chr2:210881800-210953000	Weak transcription	Gastric	stomach
5	chr2:210882400-210911400	Weak transcription	Esophagus	oesophagus
6	chr2:210882400-210914600	Weak transcription	Small Intestine	intestine
7	chr2:210882400-210919400	Weak transcription	Brain Hippocampus Middle	brain
8	chr2:210882400-210922800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr2:210882400-210927800	Weak transcription	Right Ventricle	heart
10	chr2:210882800-210911400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr2:210883000-210920600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr2:210883400-210911200	Weak transcription	Aorta	Aorta
13	chr2:210883400-210911200	Weak transcription	Pancreas	Pancrea
14	chr2:210883600-210911400	Weak transcription	Lung	lung
15	chr2:210884600-210911000	Weak transcription	Ovary	ovary
16	chr2:210884600-210912600	Weak transcription	Colon Smooth Muscle	Colon
17	chr2:210885200-210914400	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr2:210887800-210919600	Weak transcription	Rectal Smooth Muscle	rectum
19	chr2:210888000-210913400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr2:210889000-210909200	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr2:210889000-210911400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr2:210889000-210911400	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr2:210889000-210912200	Weak transcription	HMEC	breast
24	chr2:210889000-210919400	Weak transcription	HSMMtube	muscle
25	chr2:210889000-210920200	Weak transcription	Fetal Brain Male	brain
26	chr2:210889000-210925600	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr2:210889200-210911400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr2:210889200-210911400	Weak transcription	Left Ventricle	heart
29	chr2:210889200-210911600	Weak transcription	Fetal Muscle Trunk	muscle
30	chr2:210889200-210913400	Weak transcription	Primary B cells from peripheral blood	blood
31	chr2:210889200-210913400	Weak transcription	NH-A	brain
32	chr2:210889400-210910600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
33	chr2:210889400-210911200	Weak transcription	Fetal Lung	lung
34	chr2:210890000-210919200	Weak transcription	Primary T helper cells PMA-I stimulated	--
35	chr2:210890200-210911200	Weak transcription	HUVEC	blood vessel
36	chr2:210890600-210908800	Weak transcription	Primary T helper cells fromperipheralblood	blood
37	chr2:210890600-210911000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr2:210890600-210911200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr2:210890800-210912000	Weak transcription	Primary T cells fromperipheralblood	blood
40	chr2:210891000-210915000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr2:210891000-210927800	Weak transcription	Stomach Smooth Muscle	stomach
42	chr2:210891400-210910400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr2:210891400-210910600	Weak transcription	Cortex derived primary cultured neurospheres	brain
44	chr2:210891400-210911200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr2:210891400-210911200	Weak transcription	A549	lung
46	chr2:210891400-210918800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr2:210891600-210911200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr2:210891800-210911400	Weak transcription	Fetal Intestine Small	intestine
49	chr2:210892600-210911400	Weak transcription	Brain Germinal Matrix	brain
50	chr2:210893000-210910200	Weak transcription	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links