Variant report

Variant	rs1321252
Chromosome Location	chr6:25616232-25616233
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:25534168..25536481-chr6:25615973..25617556,2	K562	blood:

Extended variants
information (count: 98 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs1003967	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10223506	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1028318	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1040419	0.83[EUR][1000 genomes]
rs10447385	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10447386	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10447387	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10447388	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10447389	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10484591	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10946785	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10946786	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10946787	0.84[EUR][1000 genomes]
rs10946788	0.82[EUR][1000 genomes]
rs10946789	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11962024	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12183240	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12201186	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12524429	0.82[EUR][1000 genomes]
rs12524760	0.84[EUR][1000 genomes]
rs12525376	0.81[EUR][1000 genomes]
rs12527646	0.84[EUR][1000 genomes]
rs12528182	0.84[EUR][1000 genomes]
rs12528262	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12529390	0.81[EUR][1000 genomes]
rs1321251	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1406925	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1406926	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1406927	0.83[EUR][1000 genomes]
rs150551	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1569483	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16890878	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16890900	0.83[EUR][1000 genomes]
rs1853049	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1980450	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1980451	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1980452	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1997672	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2064126	0.80[EUR][1000 genomes]
rs2064763	0.80[EUR][1000 genomes]
rs2072842	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2072844	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2072846	0.83[EUR][1000 genomes]
rs2072847	0.82[EUR][1000 genomes]
rs2072850	0.82[EUR][1000 genomes]
rs2072851	0.82[EUR][1000 genomes]
rs2077393	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2205933	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2208041	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2223323	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2281070	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2281071	0.82[ASN][1000 genomes]
rs2281075	0.84[EUR][1000 genomes]
rs3804105	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3804106	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3804108	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3804109	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3804118	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3827500	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4140640	0.82[EUR][1000 genomes]
rs4413605	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4712948	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4712949	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs58262709	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs59606579	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60513855	0.82[EUR][1000 genomes]
rs6456687	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6903765	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6903817	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6904044	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6908390	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6935612	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs714563	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73397619	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73397648	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73397653	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73399723	0.84[EUR][1000 genomes]
rs7383628	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs742132	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7754155	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7757280	0.81[EUR][1000 genomes]
rs7761700	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7773087	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7774036	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7775000	0.82[EUR][1000 genomes]
rs876239	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs909663	0.84[EUR][1000 genomes]
rs909665	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9295667	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9461188	0.82[EUR][1000 genomes]
rs9461189	0.82[EUR][1000 genomes]
rs9467538	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9467539	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9467541	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9467542	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9467552	0.82[EUR][1000 genomes]
rs976958	0.84[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	nsv883488	chr6:25592489-25731691	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25556200-25618000	Weak transcription	Primary B cells from cord blood	blood
2	chr6:25572000-25622200	Weak transcription	HSMMtube	muscle
3	chr6:25577200-25624800	Weak transcription	Adipose Nuclei	Adipose
4	chr6:25581200-25622800	Weak transcription	Colonic Mucosa	Colon
5	chr6:25582000-25626800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr6:25582400-25622200	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr6:25583600-25623200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr6:25583800-25623200	Weak transcription	Esophagus	oesophagus
9	chr6:25585000-25627000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr6:25585200-25629400	Weak transcription	Pancreas	Pancrea
11	chr6:25587400-25622400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr6:25589200-25623400	Weak transcription	HMEC	breast
13	chr6:25590800-25618000	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr6:25592400-25625600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr6:25593600-25618600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr6:25594200-25629200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr6:25594400-25618200	Weak transcription	Primary hematopoietic stem cells	blood
18	chr6:25594400-25627200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr6:25594600-25627200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr6:25594600-25629600	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr6:25594800-25624600	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr6:25595000-25626800	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr6:25595000-25627000	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr6:25595600-25618000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
25	chr6:25598000-25622800	Weak transcription	Gastric	stomach
26	chr6:25599200-25622800	Weak transcription	Rectal Smooth Muscle	rectum
27	chr6:25599400-25618600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr6:25601000-25619400	Weak transcription	Fetal Stomach	stomach
29	chr6:25601600-25626400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr6:25602800-25623600	Weak transcription	Pancreatic Islets	Pancreatic Islet
31	chr6:25603400-25617800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
32	chr6:25603800-25624000	Weak transcription	Fetal Kidney	kidney
33	chr6:25606000-25617200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr6:25606600-25621000	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr6:25607000-25622000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr6:25608000-25621200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr6:25608200-25618000	Weak transcription	GM12878-XiMat	blood
38	chr6:25609400-25627000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr6:25610400-25620400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr6:25610400-25624200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr6:25611000-25618000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr6:25611000-25622800	Weak transcription	Primary T cells fromperipheralblood	blood
43	chr6:25611200-25619400	Weak transcription	Left Ventricle	heart
44	chr6:25611200-25621000	Weak transcription	Stomach Smooth Muscle	stomach
45	chr6:25611200-25623200	Weak transcription	Lung	lung
46	chr6:25611600-25625200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr6:25611800-25621000	Weak transcription	Fetal Intestine Large	intestine
48	chr6:25611800-25621000	Weak transcription	Fetal Lung	lung
49	chr6:25611800-25623000	Weak transcription	Fetal Thymus	thymus
50	chr6:25612000-25619000	Weak transcription	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links