Variant report

Variant	rs28595279
Chromosome Location	chr17:34153420-34153421
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:34147100..34148609-chr17:34151803..34154663,2	K562	blood:

Extended variants
information (count: 41 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11650668	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11653282	0.82[ASN][1000 genomes]
rs11868244	0.82[ASN][1000 genomes]
rs11868785	0.83[AMR][1000 genomes]
rs2107538	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2280789	0.85[ASN][1000 genomes]
rs2291299	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2306630	0.91[ASN][1000 genomes]
rs35517765	0.81[EUR][1000 genomes]
rs3760327	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3817655	0.94[AFR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4079183	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4239252	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4251703	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4251710	0.86[AFR][1000 genomes]
rs4251719	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4251724	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4251737	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4251749	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4251769	0.91[ASN][1000 genomes]
rs4251787	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4251791	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4325615	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4795090	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4795093	0.91[ASN][1000 genomes]
rs4795096	0.83[ASN][1000 genomes]
rs4796116	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4796128	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55950249	0.81[ASN][1000 genomes]
rs6505496	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6505498	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7211393	0.84[AFR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7215845	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8066406	0.82[EUR][1000 genomes]
rs8069014	0.95[AFR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8080959	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9303692	0.88[ASN][1000 genomes]
rs9889874	0.88[ASN][1000 genomes]
rs9900563	0.83[ASN][1000 genomes]
rs9908928	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9909416	0.88[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs28595279	RDM1	cis	multi-tissue	Pritchard
rs28595279	TAF15	Cis_1M	lymphoblastoid	RTeQTL
rs28595279	RDM1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:34137800-34154000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr17:34138000-34164200	Weak transcription	Colonic Mucosa	Colon
3	chr17:34138600-34180800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr17:34138800-34184000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr17:34139200-34184200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr17:34139400-34163800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr17:34139400-34163800	Weak transcription	Spleen	Spleen
8	chr17:34139400-34177600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
9	chr17:34141600-34177400	Strong transcription	HUES64 Cell Line	embryonic stem cell
10	chr17:34141800-34159800	Weak transcription	Aorta	Aorta
11	chr17:34142000-34175800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
12	chr17:34142000-34177600	Strong transcription	HUES48 Cell Line	embryonic stem cell
13	chr17:34142400-34177600	Strong transcription	Fetal Thymus	thymus
14	chr17:34142400-34178200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr17:34142600-34173200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr17:34142600-34175600	Strong transcription	H1 Cell Line	embryonic stem cell
17	chr17:34142600-34177400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
18	chr17:34142600-34180400	Strong transcription	HUES6 Cell Line	embryonic stem cell
19	chr17:34142800-34173200	Strong transcription	Osteobl	bone
20	chr17:34142800-34178600	Strong transcription	Monocytes-CD14+_RO01746	blood
21	chr17:34142800-34180800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr17:34142800-34181000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr17:34143000-34174800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr17:34143000-34177400	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr17:34143000-34177400	Strong transcription	Primary B cells from peripheral blood	blood
26	chr17:34143200-34166200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr17:34143400-34173200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr17:34143600-34158800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr17:34143600-34168200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr17:34144000-34175600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr17:34144000-34180000	Strong transcription	HSMM	muscle
32	chr17:34144200-34153800	Weak transcription	Lung	lung
33	chr17:34144200-34164200	Weak transcription	Pancreas	Pancrea
34	chr17:34144400-34153800	Strong transcription	HMEC	breast
35	chr17:34144400-34171000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr17:34144600-34156400	Strong transcription	A549	lung
37	chr17:34144600-34157200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr17:34144600-34158000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr17:34144600-34161200	Strong transcription	Duodenum Mucosa	Duodenum
40	chr17:34144800-34175800	Strong transcription	Rectal Mucosa Donor 29	rectum
41	chr17:34144800-34178600	Strong transcription	Adipose Nuclei	Adipose
42	chr17:34145000-34155400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr17:34145000-34157200	Weak transcription	Stomach Mucosa	stomach
44	chr17:34145000-34177600	Strong transcription	Dnd41	blood
45	chr17:34145200-34174400	Strong transcription	Liver	Liver
46	chr17:34145200-34174400	Strong transcription	Fetal Intestine Large	intestine
47	chr17:34145200-34177400	Strong transcription	Rectal Mucosa Donor 31	rectum
48	chr17:34145400-34154000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr17:34145600-34156000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr17:34145800-34165400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links