Smpdl3a sphingomyelin phosphodiesterase, acid-like 3A [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Smpdl3aprovided by RGD
Official Full Name: sphingomyelin phosphodiesterase, acid-like 3Aprovided by RGD
Primary source: RGD:1359277
See related: EnsemblRapid:ENSRNOG00000066945 AllianceGenome:RGD:1359277
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable phosphoric diester hydrolase activity and zinc ion binding activity. Predicted to be involved in negative regulation of cGAS/STING signaling pathway and nucleoside triphosphate catabolic process. Predicted to be located in extracellular region. Predicted to be active in extracellular space. Orthologous to human SMPDL3A (sphingomyelin phosphodiesterase acid like 3A). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Liver (RPKM 460.5), Spleen (RPKM 446.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 20q12

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (37679004..37701979)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (37132592..37155567)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (40779022..40800842)

Chromosome 20 - NC_086038.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Platelet-activating factor reduces endothelial nitric oxide production: role of acid sphingomyelinase
Title: Platelet-activating factor reduces endothelial nitric oxide production: role of acid sphingomyelinase.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP hydrolysis activity	IEA Inferred from Electronic Annotation more info
enables ATP-dependent H2AZ histone chaperone activity	IEA Inferred from Electronic Annotation more info
enables ATP-dependent H3-H4 histone complex chaperone activity	IEA Inferred from Electronic Annotation more info
enables DNA clamp loader activity	IEA Inferred from Electronic Annotation more info
enables chromatin extrusion motor activity	IEA Inferred from Electronic Annotation more info
enables cohesin loader activity	IEA Inferred from Electronic Annotation more info
enables phosphoric diester hydrolase activity	IBA Inferred from Biological aspect of Ancestor more info
enables phosphoric diester hydrolase activity	ISO Inferred from Sequence Orthology more info
enables phosphoric diester hydrolase activity	ISS Inferred from Sequence or Structural Similarity more info
NOT enables sphingomyelin phosphodiesterase activity	ISO Inferred from Sequence Orthology more info
NOT enables sphingomyelin phosphodiesterase activity	ISS Inferred from Sequence or Structural Similarity more info
enables zinc ion binding	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in chromatin looping	IEA Inferred from Electronic Annotation more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cGAS/STING signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cGAS/STING signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in nucleoside triphosphate catabolic process	ISO Inferred from Sequence Orthology more info
involved_in nucleoside triphosphate catabolic process	ISS Inferred from Sequence or Structural Similarity more info
NOT involved_in sphingomyelin catabolic process	ISO Inferred from Sequence Orthology more info
NOT involved_in sphingomyelin catabolic process	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in extracellular region	ISO Inferred from Sequence Orthology more info
located_in extracellular region	ISS Inferred from Sequence or Structural Similarity more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
is_active_in extracellular space	ISO Inferred from Sequence Orthology more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info
is_active_in extracellular space	ISS Inferred from Sequence or Structural Similarity more info
located_in extracellular space	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: cyclic GMP-AMP phosphodiesterase SMPDL3A

Names: 2',3'-cGAMP phosphodiesterase SMPDL3A; ASM-like phosphodiesterase 3a; acid sphingomyelinase-like phosphodiesterase 3A

NP_001005539.1

EC 3.6.1.15

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.