Variant report

Variant	rs13213354
Chromosome Location	chr6:145007969-145007970
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs13199226	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1406045	0.98[ASN][1000 genomes]
rs1534439	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1590054	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2328598	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4895649	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4896736	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6570640	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6927255	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6931305	0.84[AFR][1000 genomes]
rs7740417	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7758449	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7765963	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7765968	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9376842	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9376843	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9390189	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9390197	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403587	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9484899	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1032838	chr6:144978504-145110121	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830833	chr6:145001310-145201143	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144981200-145031000	Weak transcription	Placenta	Placenta
2	chr6:144982800-145010000	Weak transcription	Fetal Stomach	stomach
3	chr6:144983000-145024600	Weak transcription	Fetal Kidney	kidney
4	chr6:144996000-145010000	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr6:144996600-145018400	Weak transcription	Rectal Smooth Muscle	rectum
6	chr6:144996600-145052400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr6:144996800-145009800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr6:144997000-145008000	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr6:144997000-145008000	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr6:144997000-145008600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr6:144997000-145009400	Weak transcription	HMEC	breast
12	chr6:144997000-145010000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr6:144997000-145010000	Weak transcription	Fetal Intestine Small	intestine
14	chr6:144997000-145010000	Weak transcription	Spleen	Spleen
15	chr6:144997000-145010200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr6:144997000-145010200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr6:144997000-145010600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr6:144997000-145010600	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr6:144997000-145011000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:144997000-145011400	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr6:144997000-145011800	Weak transcription	Colonic Mucosa	Colon
22	chr6:144997000-145017600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:144997200-145018000	Weak transcription	NHLF	lung
24	chr6:144999400-145013200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr6:144999400-145025400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr6:144999800-145010200	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr6:145000600-145008200	Weak transcription	Liver	Liver
28	chr6:145000800-145025400	Weak transcription	HSMM	muscle
29	chr6:145002000-145008000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr6:145002400-145010800	Weak transcription	Right Atrium	heart
31	chr6:145002400-145013200	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr6:145002600-145008000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr6:145002800-145009800	Weak transcription	Aorta	Aorta
34	chr6:145002800-145018000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
35	chr6:145004000-145008200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr6:145004400-145047000	Weak transcription	HSMMtube	muscle
37	chr6:145004600-145008000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr6:145004600-145008000	Weak transcription	Psoas Muscle	Psoas
39	chr6:145004600-145010000	Weak transcription	Ovary	ovary
40	chr6:145004600-145010200	Weak transcription	Gastric	stomach
41	chr6:145004600-145010400	Weak transcription	Lung	lung
42	chr6:145004600-145010400	Weak transcription	Thymus	Thymus
43	chr6:145004600-145010600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr6:145005000-145008000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr6:145005000-145008000	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr6:145005000-145009800	Weak transcription	Primary monocytes fromperipheralblood	blood
47	chr6:145005000-145010000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
48	chr6:145005000-145010000	Weak transcription	Pancreas	Pancrea
49	chr6:145005000-145010200	Weak transcription	Left Ventricle	heart
50	chr6:145005000-145010400	Weak transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links