Pafah1b1 platelet-activating factor acetylhydrolase 1b, regulatory subunit 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pafah1b1provided by RGD
Official Full Name: platelet-activating factor acetylhydrolase 1b, regulatory subunit 1provided by RGD
Primary source: RGD:620331
See related: EnsemblRapid:ENSRNOG00000002755 AllianceGenome:RGD:620331
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
Also known as: LIS1
Summary: Enables dynein intermediate chain binding activity. Involved in several processes, including establishment of centrosome localization; generation of neurons; and regulation of neuron projection development. Located in several cellular components, including central region of growth cone; neuronal cell body; and nuclear envelope. Part of 1-alkyl-2-acetylglycerophosphocholine esterase complex and kinesin complex. Biomarker of visual epilepsy. Human ortholog(s) of this gene implicated in lissencephaly and lissencephaly 1. Orthologous to human PAFAH1B1 (platelet activating factor acetylhydrolase 1b regulatory subunit 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Brain (RPKM 940.0), Adrenal (RPKM 502.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q24

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (60031441..60090259, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (59533042..59591808, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (61456144..61577412, complement)

Chromosome 10 - NC_086028.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

Data show that axonal synthesis of Lis1 and p150Glued is required for the adjustment of retrograde transport to acutely changing neurotrophin signalling in the periphery of neurons.
Title: Local synthesis of dynein cofactors matches retrograde transport to acutely changing demands.
Data suggest that binding of Lis1 to DDB complex does not strongly disrupt processive motility along microtubules; motile DDB complex binds up to two Lis1 dimers; mutational analysis suggested that Lis1 binds directly to the dynein motor domains during DDB complex movement. (Lis1 = lissencephaly 1 protein; DDB complex = dynein-dynactin-BicD2 complex; BicD2 = bicaudal D homolog 2 protein)
Title: Differential effects of the dynein-regulatory factor Lissencephaly-1 on processive dynein-dynactin motility.
LIS1 interacts with KIF5b and regulates mitochondrial axonal transport in both anterograde and retrograde directions.
Title: Distinct functions of nuclear distribution proteins LIS1, Ndel1 and NudCL in regulating axonal mitochondrial transport.
Mutually exclusive cytoplasmic dynein regulation by NudE-Lis1 and dynactin.
Title: Mutually exclusive cytoplasmic dynein regulation by NudE-Lis1 and dynactin.
GH regulates the expression of cerebrocortical beta-globin, GABAB receptor 1, and the Lissencephaly-1 protein (LIS-1) in adult hypophysectomized rats.
Title: Peripheral administration of bovine GH regulates the expression of cerebrocortical beta-globin, GABAB receptor 1, and the Lissencephaly-1 protein (LIS-1) in adult hypophysectomized rats.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH130886 (e-PCR)
- UniSTS:214170

RH134247 (e-PCR)
- UniSTS:217529

Pafah1b1 (e-PCR), detects polymorphism
- UniSTS:499130

PMC310661P3 (e-PCR)
- UniSTS:272625

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables dynein complex binding	IBA Inferred from Biological aspect of Ancestor more info
enables dynein complex binding	ISO Inferred from Sequence Orthology more info
enables dynein intermediate chain binding	IDA Inferred from Direct Assay more info	PubMed
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables microtubule binding	ISO Inferred from Sequence Orthology more info
enables microtubule plus-end binding	IBA Inferred from Biological aspect of Ancestor more info
enables phosphoprotein binding	ISO Inferred from Sequence Orthology more info
enables platelet-activating factor acetyltransferase activity	TAS Traceable Author Statement more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein heterodimerization activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein-containing complex binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of JNK cascade	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within acrosome assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within actin cytoskeleton organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within adult locomotory behavior	ISO Inferred from Sequence Orthology more info
involved_in adult locomotory behavior	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within ameboidal-type cell migration	ISO Inferred from Sequence Orthology more info
involved_in auditory receptor cell development	ISO Inferred from Sequence Orthology more info
involved_in brain morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in brain morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cerebral cortex development	ISO Inferred from Sequence Orthology more info
involved_in cerebral cortex development	ISO Inferred from Sequence Orthology more info
involved_in cerebral cortex neuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within chemical synaptic transmission	ISO Inferred from Sequence Orthology more info
involved_in cochlea development	ISO Inferred from Sequence Orthology more info
involved_in corpus callosum morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in cortical microtubule organization	ISO Inferred from Sequence Orthology more info
involved_in establishment of centrosome localization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within establishment of localization in cell	ISO Inferred from Sequence Orthology more info
involved_in establishment of mitotic spindle orientation	IBA Inferred from Biological aspect of Ancestor more info
involved_in establishment of mitotic spindle orientation	ISO Inferred from Sequence Orthology more info
involved_in establishment of planar polarity of embryonic epithelium	ISO Inferred from Sequence Orthology more info
involved_in germ cell development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within hippocampus development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within interneuron migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within layer formation in cerebral cortex	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within learning or memory	ISO Inferred from Sequence Orthology more info
involved_in lipid catabolic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within maintenance of centrosome location	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within microtubule cytoskeleton organization	ISO Inferred from Sequence Orthology more info
involved_in microtubule cytoskeleton organization involved in establishment of planar polarity	ISO Inferred from Sequence Orthology more info
involved_in microtubule organizing center organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in microtubule organizing center organization	ISO Inferred from Sequence Orthology more info
involved_in microtubule sliding	IEA Inferred from Electronic Annotation more info
involved_in microtubule-based process	ISO Inferred from Sequence Orthology more info
involved_in modulation of chemical synaptic transmission	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within myeloid leukocyte migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of JNK cascade	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron projection development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neuroblast proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuromuscular process controlling balance	ISO Inferred from Sequence Orthology more info
involved_in neuromuscular process controlling balance	ISO Inferred from Sequence Orthology more info
involved_in neuron migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neuron migration	ISO Inferred from Sequence Orthology more info
involved_in neuron migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within nuclear membrane disassembly	ISO Inferred from Sequence Orthology more info
involved_in nuclear migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within osteoclast development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of axon extension	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cellular component organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of cytokine-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of dendritic spine morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of embryonic development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mitotic cell cycle	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within protein secretion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within radial glia-guided pyramidal neuron migration	ISO Inferred from Sequence Orthology more info
involved_in reelin-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in reelin-mediated signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of microtubule cytoskeleton organization	ISO Inferred from Sequence Orthology more info
involved_in regulation of postsynapse organization	ISO Inferred from Sequence Orthology more info
involved_in retrograde axonal transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within retrograde axonal transport	ISO Inferred from Sequence Orthology more info
involved_in stem cell division	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within transmission of nerve impulse	ISO Inferred from Sequence Orthology more info
involved_in vesicle transport along microtubule	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within vesicle transport along microtubule	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of 1-alkyl-2-acetylglycerophosphocholine esterase complex	IDA Inferred from Direct Assay more info	PubMed
part_of 1-alkyl-2-acetylglycerophosphocholine esterase complex	ISS Inferred from Sequence or Structural Similarity more info
is_active_in Schaffer collateral - CA1 synapse	ISO Inferred from Sequence Orthology more info
located_in astral microtubule	ISO Inferred from Sequence Orthology more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in axon cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cell cortex	ISO Inferred from Sequence Orthology more info
located_in cell leading edge	ISO Inferred from Sequence Orthology more info
located_in central region of growth cone	IDA Inferred from Direct Assay more info	PubMed
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasmic microtubule	IBA Inferred from Biological aspect of Ancestor more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in growth cone	IDA Inferred from Direct Assay more info	PubMed
part_of kinesin complex	IDA Inferred from Direct Assay more info	PubMed
is_active_in kinetochore	IBA Inferred from Biological aspect of Ancestor more info
located_in kinetochore	ISO Inferred from Sequence Orthology more info
part_of microtubule associated complex	IBA Inferred from Biological aspect of Ancestor more info
part_of microtubule associated complex	ISO Inferred from Sequence Orthology more info
located_in microtubule cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in motile cilium	ISO Inferred from Sequence Orthology more info
is_active_in neuron projection	IBA Inferred from Biological aspect of Ancestor more info
is_active_in neuronal cell body	IBA Inferred from Biological aspect of Ancestor more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
NOT located_in non-motile cilium	ISO Inferred from Sequence Orthology more info
is_active_in nuclear envelope	IBA Inferred from Biological aspect of Ancestor more info
located_in nuclear envelope	IDA Inferred from Direct Assay more info	PubMed
located_in nuclear envelope	ISO Inferred from Sequence Orthology more info
located_in nuclear membrane	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in stereocilium	ISO Inferred from Sequence Orthology more info
located_in vesicle	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: platelet-activating factor acetylhydrolase IB subunit alpha

Names: LIS-1; PAF acetylhydrolase 45 kDa subunit; PAF-AH 45 kDa subunit; PAF-AH alpha; PAF-AH beta; PAFAH alpha; lissencephaly-1 protein; platelet-activating factor acetylhydrolase beta subunit (PAF-AH beta)

NP_113951.1

EC 3.1.1.47

XP_038942872.1

EC 3.1.1.47

XP_063126033.1

EC 3.1.1.47

XP_063126034.1

EC 3.1.1.47

XP_063126035.1

EC 3.1.1.47

XP_063126036.1

EC 3.1.1.47

XP_063126037.1

EC 3.1.1.47

XP_063126038.1

EC 3.1.1.47

XP_063126039.1

EC 3.1.1.47

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_031763.3 → NP_113951.1 platelet-activating factor acetylhydrolase IB subunit alpha

See identical proteins and their annotated locations for NP_113951.1

Status: PROVISIONAL

Source sequence(s)

BC072510

UniProtKB/Swiss-Prot

O35592, P43035, P63004, P81692, Q9R2A6

UniProtKB/TrEMBL

A6HGN1

Related

ENSRNOP00000003696.4, ENSRNOT00000003696.8

Conserved Domains (3) summary

cd00200
Location:104 → 408

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:111 → 148

7WD40; WD40 repeat [structural motif]

pfam08513
Location:10 → 34

LisH

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086028.1 Reference GRCr8

Range

60031441..60090259 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063269964.1 → XP_063126034.1 platelet-activating factor acetylhydrolase IB subunit alpha isoform X1

UniProtKB/Swiss-Prot

O35592, P43035, P63004, P81692, Q9R2A6

UniProtKB/TrEMBL

A6HGN1
XM_063269963.1 → XP_063126033.1 platelet-activating factor acetylhydrolase IB subunit alpha isoform X1

UniProtKB/Swiss-Prot

O35592, P43035, P63004, P81692, Q9R2A6

UniProtKB/TrEMBL

A6HGN1
XM_063269967.1 → XP_063126037.1 platelet-activating factor acetylhydrolase IB subunit alpha isoform X1

UniProtKB/Swiss-Prot

O35592, P43035, P63004, P81692, Q9R2A6

UniProtKB/TrEMBL

A6HGN1
XM_039086944.2 → XP_038942872.1 platelet-activating factor acetylhydrolase IB subunit alpha isoform X1

UniProtKB/Swiss-Prot

O35592, P43035, P63004, P81692, Q9R2A6

UniProtKB/TrEMBL

A6HGN1

Conserved Domains (3) summary

cd00200
Location:104 → 408

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:111 → 148

7WD40; WD40 repeat [structural motif]

pfam08513
Location:10 → 34

LisH
XM_063269965.1 → XP_063126035.1 platelet-activating factor acetylhydrolase IB subunit alpha isoform X1

UniProtKB/Swiss-Prot

O35592, P43035, P63004, P81692, Q9R2A6

UniProtKB/TrEMBL

A6HGN1
XM_063269968.1 → XP_063126038.1 platelet-activating factor acetylhydrolase IB subunit alpha isoform X1

UniProtKB/Swiss-Prot

O35592, P43035, P63004, P81692, Q9R2A6

UniProtKB/TrEMBL

A6HGN1
XM_063269966.1 → XP_063126036.1 platelet-activating factor acetylhydrolase IB subunit alpha isoform X1

UniProtKB/Swiss-Prot

O35592, P43035, P63004, P81692, Q9R2A6

UniProtKB/TrEMBL

A6HGN1
XM_063269969.1 → XP_063126039.1 platelet-activating factor acetylhydrolase IB subunit alpha isoform X1

UniProtKB/Swiss-Prot

O35592, P43035, P63004, P81692, Q9R2A6

UniProtKB/TrEMBL

A6HGN1