Variant report

Variant	rs2209779
Chromosome Location	chr9:72743166-72743167
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1007127	0.89[ASN][1000 genomes]
rs10481740	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10481741	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10511980	0.82[EUR][1000 genomes]
rs10735583	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10780811	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10868799	0.87[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap]
rs11142350	0.87[CEU][hapmap];0.94[CHB][hapmap];0.83[GIH][hapmap];0.85[JPT][hapmap];0.83[LWK][hapmap];0.94[MEX][hapmap]
rs1536956	0.87[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap]
rs1927106	0.99[ASN][1000 genomes]
rs1927115	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1927128	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1927139	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2026136	0.87[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap]
rs2148861	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2182739	0.87[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap]
rs2281935	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2309633	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2975862	0.94[ASN][1000 genomes]
rs2975890	0.99[ASN][1000 genomes]
rs2975907	0.92[ASN][1000 genomes]
rs2975908	0.91[ASN][1000 genomes]
rs2975910	0.91[ASN][1000 genomes]
rs2975915	0.91[ASN][1000 genomes]
rs2975917	0.91[ASN][1000 genomes]
rs2997652	0.83[ASN][1000 genomes]
rs2997664	0.91[ASN][1000 genomes]
rs2997676	0.91[ASN][1000 genomes]
rs2997677	0.91[ASN][1000 genomes]
rs2997678	0.91[ASN][1000 genomes]
rs3015168	0.91[ASN][1000 genomes]
rs3015224	0.93[ASN][1000 genomes]
rs3015232	0.88[ASN][1000 genomes]
rs3015238	0.91[ASN][1000 genomes]
rs3015242	0.91[ASN][1000 genomes]
rs4375070	0.87[CEU][hapmap];0.94[CHB][hapmap];0.83[GIH][hapmap];0.85[JPT][hapmap];0.83[LWK][hapmap];0.94[MEX][hapmap]
rs4744968	0.89[ASN][1000 genomes]
rs4744977	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4744978	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6560019	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7027209	0.87[CEU][hapmap];0.94[CHB][hapmap];0.83[GIH][hapmap];0.85[JPT][hapmap];0.83[LWK][hapmap];0.94[MEX][hapmap]
rs943537	0.82[EUR][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	nsv1049457	chr9:72539144-72765913	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72722000-72758400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr9:72725600-72745200	Weak transcription	Lung	lung
3	chr9:72725800-72764200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr9:72726200-72749200	Weak transcription	Fetal Muscle Trunk	muscle
5	chr9:72726800-72785200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr9:72727000-72776200	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr9:72727200-72746600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr9:72728200-72752800	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr9:72728200-72758400	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr9:72728600-72746800	Weak transcription	Duodenum Mucosa	Duodenum
11	chr9:72729200-72744800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
12	chr9:72731200-72768400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr9:72733200-72745000	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr9:72733800-72748400	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr9:72736200-72745000	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr9:72736200-72746000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr9:72736200-72747400	Weak transcription	Fetal Muscle Leg	muscle
18	chr9:72736200-72748800	Weak transcription	Fetal Brain Female	brain
19	chr9:72736200-72761200	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr9:72736600-72744600	Weak transcription	Rectal Smooth Muscle	rectum
21	chr9:72737000-72744200	Strong transcription	Colon Smooth Muscle	Colon
22	chr9:72737000-72748000	Strong transcription	Stomach Smooth Muscle	stomach
23	chr9:72737200-72745200	Strong transcription	HSMMtube	muscle
24	chr9:72738200-72750400	Weak transcription	Fetal Intestine Small	intestine
25	chr9:72739000-72749000	Weak transcription	Gastric	stomach
26	chr9:72740000-72743400	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr9:72740200-72746200	Strong transcription	Duodenum Smooth Muscle	Duodenum
28	chr9:72740400-72743200	Enhancers	Fetal Lung	lung
29	chr9:72740400-72750000	Weak transcription	NH-A	brain
30	chr9:72740600-72766400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr9:72740800-72744000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr9:72741000-72745200	Weak transcription	Fetal Intestine Large	intestine
33	chr9:72741000-72758600	Weak transcription	Colonic Mucosa	Colon
34	chr9:72741200-72743400	Enhancers	Muscle Satellite Cultured Cells	--
35	chr9:72741200-72743400	Enhancers	Osteobl	bone
36	chr9:72741400-72743400	Strong transcription	HMEC	breast
37	chr9:72741400-72744600	Weak transcription	NHEK	skin
38	chr9:72741400-72765600	Weak transcription	Esophagus	oesophagus
39	chr9:72741600-72744600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr9:72741600-72744800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr9:72741600-72744800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr9:72741600-72745000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr9:72741600-72747400	Weak transcription	HSMM	muscle
44	chr9:72741600-72749400	Weak transcription	Fetal Stomach	stomach
45	chr9:72741600-72751600	Weak transcription	NHLF	lung
46	chr9:72741600-72755000	Weak transcription	Left Ventricle	heart
47	chr9:72741600-72757400	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr9:72741600-72775400	Weak transcription	Adipose Nuclei	Adipose
49	chr9:72741600-72789400	Weak transcription	Spleen	Spleen
50	chr9:72742200-72743200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links