Variant report

Variant	rs11124570
Chromosome Location	chr2:37478477-37478478
allele	A/G
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	chr2:37192512..37195396-chr2:37476423..37478766,2	K562	blood:
3	chr2:37456368..37460309-chr2:37478130..37482518,4	K562	blood:
4	chr2:37457285..37460284-chr2:37478359..37480547,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115808	Chromatin interaction
ENSG00000115816	Chromatin interaction
ENSG00000003509	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10201396	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10204434	0.94[CHB][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10206380	0.84[JPT][hapmap]
rs10460527	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11124573	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11124577	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1160516	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11887618	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12469082	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs12471267	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12476195	0.90[ASN][1000 genomes]
rs13390055	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs13412560	1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs13421912	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13429526	0.89[CHB][hapmap];0.94[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17020344	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs17020358	0.89[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs2041838	0.94[CHB][hapmap];0.94[JPT][hapmap];0.81[AFR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2041839	0.91[ASN][1000 genomes]
rs2075215	0.84[CHB][hapmap];0.94[JPT][hapmap]
rs2075216	0.84[CHB][hapmap];0.94[JPT][hapmap]
rs2192939	0.89[ASN][1000 genomes]
rs2216114	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2251879	0.89[ASN][1000 genomes]
rs2268988	0.95[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs2287091	0.94[CHB][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2287092	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2300883	0.82[ASN][1000 genomes]
rs2300886	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2300887	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2300888	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2300891	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2300894	1.00[CHB][hapmap];0.94[JPT][hapmap];0.82[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2300895	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2302649	0.94[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs2372887	0.80[ASN][1000 genomes]
rs28524149	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3213746	0.83[CHB][hapmap];0.88[JPT][hapmap]
rs3755192	0.83[CHB][hapmap];0.94[JPT][hapmap]
rs3770761	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3770767	0.93[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3821144	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4629138	0.94[CHB][hapmap];0.94[JPT][hapmap];0.82[YRI][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4670682	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4670684	0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4670685	0.83[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57861177	0.85[ASN][1000 genomes]
rs59559471	0.89[ASN][1000 genomes]
rs6709930	0.83[ASN][1000 genomes]
rs73927424	0.90[ASN][1000 genomes]
rs7593932	0.83[JPT][hapmap]
rs9309002	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9309003	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs952711	0.83[CHB][hapmap];0.94[JPT][hapmap]
rs952712	0.83[CHB][hapmap];0.94[JPT][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11124570	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	chr2:37462400-37479200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr2:37463200-37481000	Strong transcription	A549	lung
18	chr2:37463200-37487200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr2:37463200-37487600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr2:37463200-37488000	Strong transcription	Primary monocytes fromperipheralblood	blood
21	chr2:37463400-37488400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
22	chr2:37463400-37509600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr2:37463600-37489600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
24	chr2:37463800-37484800	Strong transcription	Primary T cells fromperipheralblood	blood
25	chr2:37463800-37488200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr2:37464000-37488400	Strong transcription	Primary B cells from peripheral blood	blood
27	chr2:37464400-37487000	Strong transcription	HSMM	muscle
28	chr2:37464400-37489600	Strong transcription	Liver	Liver
29	chr2:37464800-37486600	Strong transcription	Fetal Intestine Large	intestine
30	chr2:37465000-37489600	Strong transcription	Monocytes-CD14+_RO01746	blood
31	chr2:37466000-37487600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr2:37467200-37487000	Strong transcription	HepG2	liver
33	chr2:37467600-37530200	Weak transcription	Pancreas	Pancrea
34	chr2:37468200-37486400	Strong transcription	Rectal Mucosa Donor 29	rectum
35	chr2:37468200-37487600	Strong transcription	Adipose Nuclei	Adipose
36	chr2:37468200-37487800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr2:37468200-37488200	Strong transcription	Duodenum Mucosa	Duodenum
38	chr2:37468400-37486800	Strong transcription	Primary hematopoietic stem cells	blood
39	chr2:37468400-37488400	Strong transcription	Fetal Muscle Trunk	muscle
40	chr2:37468400-37492400	Strong transcription	NH-A	brain
41	chr2:37468600-37481800	Strong transcription	Brain Angular Gyrus	brain
42	chr2:37468600-37486200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr2:37468600-37486600	Strong transcription	H9 Cell Line	embryonic stem cell
44	chr2:37469000-37480800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr2:37470400-37487000	Strong transcription	Rectal Mucosa Donor 31	rectum
46	chr2:37470400-37488000	Strong transcription	Dnd41	blood
47	chr2:37470400-37498600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr2:37470400-37521600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr2:37470600-37482600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr2:37470600-37493400	Weak transcription	Fetal Intestine Small	intestine

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