Variant report

Variant	rs363223
Chromosome Location	chr10:119022561-119022562
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 9 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1008448	1.00[YRI][hapmap]
rs10377	1.00[ASW][hapmap];0.84[GIH][hapmap];0.91[LWK][hapmap];0.82[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10886054	1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs14240	1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs181440	1.00[ASW][hapmap];0.88[GIH][hapmap];0.92[LWK][hapmap];0.92[MEX][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap]
rs2015586	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2096112	0.83[AFR][1000 genomes]
rs2490628	1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs2532841	0.87[ASW][hapmap];0.91[YRI][hapmap]
rs2794418	0.83[AFR][1000 genomes]
rs363224	0.87[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.96[TSI][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363225	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs363230	0.87[ASW][hapmap];0.91[GIH][hapmap];0.92[MEX][hapmap];0.83[TSI][hapmap]
rs363237	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs7085415	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7095278	0.94[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7099216	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7100827	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7902237	0.87[ASW][hapmap];0.89[LWK][hapmap];0.95[YRI][hapmap]

mRNA abundance (count:9)

SNP	Gene	Cis/trans	Tissue	Source
rs363223	PDZD8	cis	Artery Tibial	GTEx
rs363223	C10orf81	cis	cerebellum	SCAN
rs363223	PDZD8	cis	lymphoblastoid	seeQTL
rs363223	PDZD8	Cis_1M	lymphoblastoid	RTeQTL
rs363223	PDZD8	cis	Artery Aorta	GTEx
rs363223	SLC18A2	Cis_1M	lymphoblastoid	RTeQTL
rs363223	SLC18A2	cis	Muscle Skeletal	GTEx
rs363223	SLC18A2	cis	Artery Tibial	GTEx
rs363223	PDZD8	cis	Esophagus Muscularis	GTEx

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:119017400-119034000	Weak transcription	Gastric	stomach
2	chr10:119018400-119023800	Enhancers	Fetal Thymus	thymus
3	chr10:119019600-119023000	Enhancers	Ovary	ovary
4	chr10:119019800-119023200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr10:119019800-119031200	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr10:119020000-119034000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr10:119020000-119042600	Weak transcription	Primary hematopoietic stem cells	blood
8	chr10:119020600-119024000	Weak transcription	Primary T cells from cord blood	blood
9	chr10:119020600-119024200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr10:119020600-119028000	Weak transcription	Thymus	Thymus
11	chr10:119020600-119035000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr10:119020600-119043200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr10:119020600-119045400	Weak transcription	Fetal Heart	heart
14	chr10:119021400-119043200	Weak transcription	Fetal Intestine Small	intestine
15	chr10:119021800-119022600	Enhancers	Fetal Intestine Large	intestine
16	chr10:119021800-119023600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr10:119022000-119024600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr10:119022200-119023200	Enhancers	K562	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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