Variant report

Variant	rs2110964
Chromosome Location	chr2:37479959-37479960
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:37477058..37480479-chr2:37486179..37488698,3	K562	blood:
2	chr2:37456368..37460309-chr2:37478130..37482518,4	K562	blood:
3	chr2:37460819..37462677-chr2:37478640..37481087,2	K562	blood:
4	chr2:37457285..37460284-chr2:37478359..37480547,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115816	Chromatin interaction
ENSG00000003509	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10177970	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10178975	0.94[EUR][1000 genomes]
rs11124575	0.95[EUR][1000 genomes]
rs12611683	0.87[EUR][1000 genomes]
rs12712530	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13409250	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1861444	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2041837	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2041840	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2110962	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2160391	0.86[EUR][1000 genomes]
rs2160392	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2160393	0.94[EUR][1000 genomes]
rs2160395	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2249965	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2372888	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2372990	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2372992	0.81[AMR][1000 genomes]
rs2430494	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2465488	0.85[EUR][1000 genomes]
rs2540972	0.86[EUR][1000 genomes]
rs2540973	0.87[EUR][1000 genomes]
rs2540977	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2714470	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3902740	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4670678	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4670687	0.88[EUR][1000 genomes]
rs4670691	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6544065	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6544067	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6730503	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6742641	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7579990	0.92[EUR][1000 genomes]
rs759461	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7601628	0.96[EUR][1000 genomes]
rs7602924	0.91[EUR][1000 genomes]
rs8243	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2110964	PRKD3	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:37460000-37495600	Weak transcription	Small Intestine	intestine
2	chr2:37460000-37501600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr2:37460200-37528600	Weak transcription	Stomach Mucosa	stomach
4	chr2:37460400-37481600	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr2:37460400-37492200	Weak transcription	Fetal Heart	heart
6	chr2:37460400-37498600	Weak transcription	Gastric	stomach
7	chr2:37460600-37488000	Strong transcription	HUES6 Cell Line	embryonic stem cell
8	chr2:37460600-37493400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr2:37460600-37498600	Weak transcription	Spleen	Spleen
10	chr2:37461000-37488200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr2:37461000-37489800	Strong transcription	HUES48 Cell Line	embryonic stem cell
12	chr2:37461200-37518800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr2:37461800-37486800	Strong transcription	H1 Cell Line	embryonic stem cell
14	chr2:37462000-37487200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
15	chr2:37462000-37488000	Strong transcription	HUES64 Cell Line	embryonic stem cell
16	chr2:37463200-37481000	Strong transcription	A549	lung
17	chr2:37463200-37487200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr2:37463200-37487600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr2:37463200-37488000	Strong transcription	Primary monocytes fromperipheralblood	blood
20	chr2:37463400-37488400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr2:37463400-37509600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr2:37463600-37489600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
23	chr2:37463800-37484800	Strong transcription	Primary T cells fromperipheralblood	blood
24	chr2:37463800-37488200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr2:37464000-37488400	Strong transcription	Primary B cells from peripheral blood	blood
26	chr2:37464400-37487000	Strong transcription	HSMM	muscle
27	chr2:37464400-37489600	Strong transcription	Liver	Liver
28	chr2:37464800-37486600	Strong transcription	Fetal Intestine Large	intestine
29	chr2:37465000-37489600	Strong transcription	Monocytes-CD14+_RO01746	blood
30	chr2:37466000-37487600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr2:37467200-37487000	Strong transcription	HepG2	liver
32	chr2:37467600-37530200	Weak transcription	Pancreas	Pancrea
33	chr2:37468200-37486400	Strong transcription	Rectal Mucosa Donor 29	rectum
34	chr2:37468200-37487600	Strong transcription	Adipose Nuclei	Adipose
35	chr2:37468200-37487800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr2:37468200-37488200	Strong transcription	Duodenum Mucosa	Duodenum
37	chr2:37468400-37486800	Strong transcription	Primary hematopoietic stem cells	blood
38	chr2:37468400-37488400	Strong transcription	Fetal Muscle Trunk	muscle
39	chr2:37468400-37492400	Strong transcription	NH-A	brain
40	chr2:37468600-37481800	Strong transcription	Brain Angular Gyrus	brain
41	chr2:37468600-37486200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr2:37468600-37486600	Strong transcription	H9 Cell Line	embryonic stem cell
43	chr2:37469000-37480800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr2:37470400-37487000	Strong transcription	Rectal Mucosa Donor 31	rectum
45	chr2:37470400-37488000	Strong transcription	Dnd41	blood
46	chr2:37470400-37498600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr2:37470400-37521600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr2:37470600-37482600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr2:37470600-37493400	Weak transcription	Fetal Intestine Small	intestine
50	chr2:37470800-37521400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links