SNP Detail Info-rs2209192

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 9	NC_000009.12:g.9862171C>G
GRCh37.p13 chr 9	NC_000009.11:g.9862171C>G
PTPRD RefSeqGene	NG_033963.1:g.755553G>C

Gene: PTPRD, protein tyrosine phosphatase, receptor type D(minus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
PTPRD transcript variant 1	NM_002839.3:c.	N/A	Intron Variant
PTPRD transcript variant 5	NM_001040712.2:c.	N/A	Genic Upstream Transcript Variant
PTPRD transcript variant 6	NM_001171025.1:c.	N/A	Genic Upstream Transcript Variant
PTPRD transcript variant 2	NM_130391.3:c.	N/A	Genic Upstream Transcript Variant
PTPRD transcript variant 3	NM_130392.3:c.	N/A	Genic Upstream Transcript Variant
PTPRD transcript variant 4	NM_130393.3:c.	N/A	Genic Upstream Transcript Variant
PTPRD transcript variant X10	XM_006716817.3:c.	N/A	Intron Variant
PTPRD transcript variant X24	XM_006716823.2:c.	N/A	Intron Variant
PTPRD transcript variant X26	XM_006716825.3:c.	N/A	Intron Variant
PTPRD transcript variant X28	XM_006716827.3:c.	N/A	Intron Variant
PTPRD transcript variant X40	XM_006716832.3:c.	N/A	Intron Variant
PTPRD transcript variant X41	XM_006716833.3:c.	N/A	Intron Variant
PTPRD transcript variant X42	XM_006716834.3:c.	N/A	Intron Variant
PTPRD transcript variant X45	XM_006716835.3:c.	N/A	Intron Variant
PTPRD transcript variant X48	XM_006716837.3:c.	N/A	Intron Variant
PTPRD transcript variant X49	XM_006716838.3:c.	N/A	Intron Variant
PTPRD transcript variant X50	XM_006716839.3:c.	N/A	Intron Variant
PTPRD transcript variant X25	XM_011517992.2:c.	N/A	Intron Variant
PTPRD transcript variant X1	XM_017014958.1:c.	N/A	Intron Variant
PTPRD transcript variant X2	XM_017014959.1:c.	N/A	Intron Variant
PTPRD transcript variant X3	XM_017014960.1:c.	N/A	Intron Variant
PTPRD transcript variant X4	XM_017014961.1:c.	N/A	Intron Variant
PTPRD transcript variant X6	XM_017014963.1:c.	N/A	Intron Variant
PTPRD transcript variant X7	XM_017014964.1:c.	N/A	Intron Variant
PTPRD transcript variant X8	XM_017014965.1:c.	N/A	Intron Variant
PTPRD transcript variant X9	XM_017014966.1:c.	N/A	Intron Variant
PTPRD transcript variant X11	XM_017014967.1:c.	N/A	Intron Variant
PTPRD transcript variant X12	XM_017014968.1:c.	N/A	Intron Variant
PTPRD transcript variant X13	XM_017014969.1:c.	N/A	Intron Variant
PTPRD transcript variant X14	XM_017014970.1:c.	N/A	Intron Variant
PTPRD transcript variant X15	XM_017014971.1:c.	N/A	Intron Variant
PTPRD transcript variant X16	XM_017014972.1:c.	N/A	Intron Variant
PTPRD transcript variant X17	XM_017014973.1:c.	N/A	Intron Variant
PTPRD transcript variant X18	XM_017014974.1:c.	N/A	Intron Variant
PTPRD transcript variant X19	XM_017014975.1:c.	N/A	Intron Variant
PTPRD transcript variant X20	XM_017014976.1:c.	N/A	Intron Variant
PTPRD transcript variant X21	XM_017014977.1:c.	N/A	Intron Variant
PTPRD transcript variant X22	XM_017014978.1:c.	N/A	Intron Variant
PTPRD transcript variant X23	XM_017014979.1:c.	N/A	Intron Variant
PTPRD transcript variant X27	XM_017014980.1:c.	N/A	Intron Variant
PTPRD transcript variant X29	XM_017014981.1:c.	N/A	Intron Variant
PTPRD transcript variant X30	XM_017014982.1:c.	N/A	Intron Variant
PTPRD transcript variant X31	XM_017014983.1:c.	N/A	Intron Variant
PTPRD transcript variant X32	XM_017014984.1:c.	N/A	Intron Variant
PTPRD transcript variant X33	XM_017014985.1:c.	N/A	Intron Variant
PTPRD transcript variant X34	XM_017014986.1:c.	N/A	Intron Variant
PTPRD transcript variant X35	XM_017014987.1:c.	N/A	Intron Variant
PTPRD transcript variant X36	XM_017014988.1:c.	N/A	Intron Variant
PTPRD transcript variant X37	XM_017014989.1:c.	N/A	Intron Variant
PTPRD transcript variant X38	XM_017014990.1:c.	N/A	Intron Variant
PTPRD transcript variant X39	XM_017014991.1:c.	N/A	Intron Variant
PTPRD transcript variant X43	XM_017014992.1:c.	N/A	Intron Variant
PTPRD transcript variant X44	XM_017014993.1:c.	N/A	Intron Variant
PTPRD transcript variant X46	XM_017014994.1:c.	N/A	Intron Variant
PTPRD transcript variant X47	XM_017014995.1:c.	N/A	Intron Variant
PTPRD transcript variant X5	XM_017014962.1:c.	N/A	Genic Upstream Transcript Variant

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	C=0.526	G=0.474
1000Genomes	American	Sub	694	C=0.510	G=0.490
1000Genomes	East Asian	Sub	1008	C=0.244	G=0.756
1000Genomes	Europe	Sub	1006	C=0.733	G=0.267
1000Genomes	Global	Study-wide	5008	C=0.549	G=0.451
1000Genomes	South Asian	Sub	978	C=0.730	G=0.270
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	C=0.753	G=0.247
The Genome Aggregation Database	African	Sub	8644	C=0.541	G=0.459
The Genome Aggregation Database	American	Sub	834	C=0.490	G=0.510
The Genome Aggregation Database	East Asian	Sub	1612	C=0.234	G=0.766
The Genome Aggregation Database	Europe	Sub	18244	C=0.730	G=0.269
The Genome Aggregation Database	Global	Study-wide	29634	C=0.641	G=0.358
The Genome Aggregation Database	Other	Sub	300	C=0.770	G=0.230
Trans-Omics for Precision Medicine	Global	Study-wide	29118	C=0.632	G=0.367
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	C=0.755	G=0.245

PMID	Title	Author	Journal
21314694	Genomewide association analysis of symptoms of alcohol dependence in the molecular genetics of schizophrenia (MGS2) control sample.	Kendler KS	Alcohol Clin Exp Res

P-Value

SNP ID	p-value	Traits	Study
rs2209192	0.000744	alcohol dependence	21314694

eQTL of rs2209192 in Brain tissues (GTEx Analysis Release V7)

Position (v37)	eGene	GeneID	Variant	p-value	TSS	Tissue
There is no eQTL annotation for this SNP

meQTL of rs2209192 in Fetal Brain

Probe ID	Position	Gene	beta	p-value
There is no meQTL annotation for this SNP

rs2209192

Genomic Coordinates

Gene: PTPRD, protein tyrosine phosphatase, receptor type D(minus strand)

Population Frequency

P-Value

eQTL of rs2209192 in Brain tissues (GTEx Analysis Release V7)

meQTL of rs2209192 in Fetal Brain

Genomic View

Chromatin Interaction