Variant report

Variant	rs2283142
Chromosome Location	chr10:119031450-119031451
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PDZD8-6	chr10:119031051-119031834	expReg_chr10_8334_-

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10082463	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10082478	0.90[AMR][1000 genomes]
rs10082507	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10787767	0.90[AMR][1000 genomes]
rs10787768	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10787769	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10787772	0.91[EUR][1000 genomes]
rs10886058	0.90[AMR][1000 genomes]
rs10886069	0.86[EUR][1000 genomes]
rs11197938	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11197945	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11197957	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11197961	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11197983	0.91[EUR][1000 genomes]
rs11197985	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12221325	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12243925	0.88[EUR][1000 genomes]
rs12249877	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12250377	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12260782	0.91[EUR][1000 genomes]
rs12265713	0.90[AMR][1000 genomes]
rs12572369	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12573252	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17096103	0.80[AMR][1000 genomes]
rs2255321	0.88[AMR][1000 genomes]
rs2532808	0.83[ASN][1000 genomes]
rs2532809	0.81[AMR][1000 genomes]
rs363227	0.81[AMR][1000 genomes]
rs363228	0.81[AMR][1000 genomes]
rs363229	0.81[AMR][1000 genomes]
rs363238	0.90[AMR][1000 genomes]
rs363256	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs363262	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs363271	0.81[AMR][1000 genomes]
rs363272	0.81[AMR][1000 genomes]
rs363279	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363296	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363303	0.82[AMR][1000 genomes]
rs4751621	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4751622	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4752048	0.90[AMR][1000 genomes]
rs4752051	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4752052	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4752055	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7090219	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72825515	0.90[AMR][1000 genomes]
rs72825561	0.91[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2283142	PDZD8	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:119017400-119034000	Weak transcription	Gastric	stomach
2	chr10:119020000-119034000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr10:119020000-119042600	Weak transcription	Primary hematopoietic stem cells	blood
4	chr10:119020600-119035000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr10:119020600-119043200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr10:119020600-119045400	Weak transcription	Fetal Heart	heart
7	chr10:119021400-119043200	Weak transcription	Fetal Intestine Small	intestine
8	chr10:119022600-119042000	Weak transcription	Fetal Intestine Large	intestine
9	chr10:119023000-119031800	Weak transcription	Ovary	ovary
10	chr10:119023800-119043200	Weak transcription	Spleen	Spleen
11	chr10:119026000-119032600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr10:119027000-119038400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr10:119027800-119042600	Weak transcription	HepG2	liver
14	chr10:119028800-119042600	Weak transcription	Fetal Kidney	kidney
15	chr10:119029200-119031800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr10:119029200-119042800	Weak transcription	Primary T cells from cord blood	blood
17	chr10:119029200-119043000	Weak transcription	Fetal Thymus	thymus
18	chr10:119029200-119043200	Weak transcription	Fetal Stomach	stomach
19	chr10:119030000-119040800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr10:119030600-119031600	Enhancers	HUES64 Cell Line	embryonic stem cell
21	chr10:119030600-119031600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr10:119030600-119031600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr10:119030600-119031600	Enhancers	A549	lung
24	chr10:119030600-119031800	Enhancers	NHEK	skin
25	chr10:119030600-119032000	Enhancers	ES-I3 Cell Line	embryonic stem cell
26	chr10:119030600-119032000	Enhancers	HMEC	breast
27	chr10:119030600-119032600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr10:119030800-119031600	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr10:119030800-119031800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr10:119031200-119032600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr10:119031200-119033400	Enhancers	Primary neutrophils fromperipheralblood	blood
32	chr10:119031200-119042600	Weak transcription	Thymus	Thymus
33	chr10:119031400-119031600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr10:119031400-119031800	Enhancers	K562	blood
35	chr10:119031400-119042200	Weak transcription	NH-A	brain

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