Smpdl3b sphingomyelin phosphodiesterase, acid-like 3B [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Smpdl3bprovided by RGD
Official Full Name: sphingomyelin phosphodiesterase, acid-like 3Bprovided by RGD
Primary source: RGD:1307458
See related: EnsemblRapid:ENSRNOG00000042326 AllianceGenome:RGD:1307458
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 membrane lipid catabolic process; negative regulation of inflammatory response; and negative regulation of toll-like receptor signaling pathway. Predicted to be located in plasma membrane. Predicted to be active in extracellular space. Orthologous to human SMPDL3B (sphingomyelin phosphodiesterase acid like 3B). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Muscle (RPKM 91.0), Testes (RPKM 43.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q36

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (150228607..150250688, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (144944618..144966703, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (150925150..150946994, complement)

Chromosome 5 - NC_086023.1 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
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?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
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 sphingomyelin phosphodiesterase activity	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in membrane lipid catabolic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of toll-like receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in sphingomyelin catabolic process	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: acid sphingomyelinase-like phosphodiesterase 3b

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.

mRNA and Protein(s)

NM_001025737.1 → NP_001020908.1 acid sphingomyelinase-like phosphodiesterase 3b precursor

See identical proteins and their annotated locations for NP_001020908.1

Status: PROVISIONAL

Source sequence(s)

BC097983

UniProtKB/TrEMBL

Q4V7D9

Related

ENSRNOP00000062762.1, ENSRNOT00000067905.4

Conserved Domains (2) summary

cd00842
Location:23 → 323

MPP_ASMase; acid sphingomyelinase and related proteins, metallophosphatase domain

pfam00149
Location:22 → 281

Metallophos; Calcineurin-like phosphoesterase