Variant report

Variant	rs2789489
Chromosome Location	chr6:149727345-149727346
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149637077..149638837-chr6:149727129..149729209,2	K562	blood:
2	chr6:149499792..149502412-chr6:149727216..149730047,2	K562	blood:

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs17086451	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2341783	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2341784	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2744427	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2744428	0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2744431	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2744432	0.83[ASN][1000 genomes]
rs2744433	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2744434	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2789487	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2789490	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2789500	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3734296	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4360154	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs472620	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs472810	1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs474369	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs478531	0.91[EUR][1000 genomes]
rs478767	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs480526	0.88[ASN][1000 genomes]
rs480778	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs481769	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4897117	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs490529	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs492956	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs494340	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs501926	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs504762	0.92[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs511105	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs513923	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs515133	0.92[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs518879	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs522646	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs527971	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs532008	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs532250	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs533026	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs538386	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs554926	0.84[AFR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs556335	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs559052	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs559204	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs564405	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs565825	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs570442	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs588028	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60006373	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs600739	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs630642	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs641068	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs652514	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs652921	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs663625	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs674919	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs681919	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs909793	0.80[AMR][1000 genomes]
rs92605	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9373591	0.80[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs9377216	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9377217	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9377218	0.82[AMR][1000 genomes]
rs9390676	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9399686	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9404032	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9404034	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9404035	0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9404037	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[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	nsv1024106	chr6:149622349-149745053	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv522875	chr6:149643709-149762537	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149700400-149728400	Weak transcription	Hela-S3	cervix
2	chr6:149700400-149732400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:149700600-149730800	Weak transcription	Fetal Brain Male	brain
4	chr6:149700800-149732800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr6:149701400-149730800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr6:149701400-149734200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr6:149701600-149733600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr6:149703400-149730600	Weak transcription	Brain Germinal Matrix	brain
9	chr6:149703600-149730400	Weak transcription	NHLF	lung
10	chr6:149705200-149734600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr6:149709400-149733000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr6:149709600-149729800	Weak transcription	Fetal Heart	heart
13	chr6:149709600-149750200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:149713800-149735400	Weak transcription	Small Intestine	intestine
15	chr6:149714000-149728000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr6:149714800-149730800	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr6:149715000-149728200	Strong transcription	Fetal Thymus	thymus
18	chr6:149715400-149732600	Strong transcription	Dnd41	blood
19	chr6:149715600-149733600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr6:149716000-149728000	Strong transcription	Primary T helper cells fromperipheralblood	blood
21	chr6:149716000-149728200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr6:149716400-149728600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr6:149717400-149728200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr6:149717400-149728400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr6:149717400-149733200	Strong transcription	HUES64 Cell Line	embryonic stem cell
26	chr6:149717600-149727600	Strong transcription	Primary B cells from cord blood	blood
27	chr6:149717800-149732200	Strong transcription	GM12878-XiMat	blood
28	chr6:149718600-149727800	Strong transcription	HUES6 Cell Line	embryonic stem cell
29	chr6:149718800-149727600	Weak transcription	Stomach Mucosa	stomach
30	chr6:149718800-149727800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
31	chr6:149718800-149728400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr6:149718800-149732800	Strong transcription	HSMM	muscle
33	chr6:149719000-149727400	Strong transcription	NH-A	brain
34	chr6:149720200-149727800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr6:149721800-149730400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr6:149721800-149730400	Weak transcription	Gastric	stomach
37	chr6:149721800-149730600	Weak transcription	Esophagus	oesophagus
38	chr6:149721800-149730800	Weak transcription	Aorta	Aorta
39	chr6:149721800-149730800	Weak transcription	Brain Cingulate Gyrus	brain
40	chr6:149721800-149730800	Weak transcription	Colonic Mucosa	Colon
41	chr6:149721800-149730800	Weak transcription	Spleen	Spleen
42	chr6:149721800-149731000	Weak transcription	Rectal Smooth Muscle	rectum
43	chr6:149721800-149732800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
44	chr6:149721800-149734000	Weak transcription	Right Ventricle	heart
45	chr6:149721800-149743800	Weak transcription	Lung	lung
46	chr6:149721800-149744800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr6:149721800-149745200	Weak transcription	Pancreas	Pancrea
48	chr6:149722000-149730400	Weak transcription	Brain Angular Gyrus	brain
49	chr6:149722000-149730600	Weak transcription	H1 Cell Line	embryonic stem cell
50	chr6:149722000-149730800	Weak transcription	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links