PEG10 paternally expressed 10 [Sus scrofa (pig)] - Gene

Summary

Gene symbol: PEG10
Gene description: paternally expressed 10
See related: Ensembl:ENSSSCG00000036049
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Sus scrofa
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
Summary: This is a paternally expressed imprinted gene that is thought to have been derived from the Ty3/Gypsy family of retrotransposons. It contains two overlapping open reading frames, RF1 and RF2, and expresses two proteins: a shorter, gag-like protein (with a CCHC-type zinc finger domain) from RF1; and a longer, gag/pol-like fusion protein (with an additional aspartic protease motif) from RF1/RF2 by -1 translational frameshifting (-1 FS). While -1 FS has been observed in RNA viruses and transposons in both prokaryotes and eukaryotes, this gene represents the first example of -1 FS in a eukaryotic cellular gene. This gene is highly conserved across mammalian species and retains the heptanucleotide (GGGAAAC) and pseudoknot elements required for -1 FS. It is expressed in adult and embryonic tissues (most notably in placenta) and reported to have a role in cell proliferation, differentiation, apoptosis and cancer development. Knockout mice lacking this gene showed early embryonic lethality with placental defects, indicating the importance of this gene in embryonic development. Different isoforms resulting from alternatively spliced transcript variants, and use of non-AUG (CUG) translation initiation codon have been found for this gene. [provided by RefSeq, Oct 2014]
Expression: Broad expression in psoas major muscle (RPKM 21.8), ovary (RPKM 18.0) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 9

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
106	current	Sscrofa11.1 (GCF_000003025.6)	9	NC_010451.4 (74474121..74486983)
105	previous assembly	Sscrofa10.2 (GCF_000003025.5)	9	NC_010451.3 (81643099..81655365)

Chromosome 9 - NC_010451.4 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Transcriptome data used for gene annotation Transcriptome data used for gene annotation
Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
BioProject: PRJNA311523
Publication: PMID 27646534
Analysis date: Thu Dec 14 17:10:49 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

polymorphisms in PEG10 and PPP1R9A were associated with fat deposition and carcass traits
Title: Polymorphisms in PEG10 and PPP1R9A genes are associated with porcine carcass and meat quality traits.
A transition SNP was identified by microarray expression profiling and confirmed by pyrosequencing in Meishan and white composite swine breeds.
Title: Identification of SNPs and INDELS in swine transcribed sequences using short oligonucleotide microarrays.
The imprinting status of PEG10 is conserved in swine as paternal expression was demonstrated by quantitative allelic sequencing of reciprocal crosses in fetal tissues of whole brain, carcass, liver and placentae.
Title: Characterization of conserved and nonconserved imprinted genes in swine.
Gene is monoallelically expressed and may be imprinted in porcine placentas on days 75 and 90 of gestation.
Title: Imprinting analyses of the porcine GATM and PEG10 genes in placentas on days 75 and 90 of gestation.
The expression patterns of PLAGL1 and PEG10 genes in two breeds of swine are reported.
Title: Imprinted status of pleomorphic adenoma gene-like I and paternal expression gene 10 genes in pigs.

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General gene information

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Gene Ontology Provided by RefSeq

Function	Evidence Code	Pubs
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info	PubMed
enables zinc ion binding	IEA Inferred from Electronic Annotation more info	PubMed

Component	Evidence Code	Pubs
located_in cytosol	IEA Inferred from Electronic Annotation more info	PubMed

General protein information

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Preferred Names: retrotransposon-derived protein PEG10

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_001109944.2 → NP_001103414.2 retrotransposon-derived protein PEG10 isoform 4

Status: REVIEWED

Description

Transcript Variant: This variant (2) has two overlapping open reading frames (RF1 and RF2). It uses an alternate donor splice site at the 5' terminal exon and initiates translation from an alternate, upstream AUG compared to variant 1. This isoform (4) produced from RF1 in the absence of -1 translational frameshifting has a longer and distinct N-terminus, but a shorter C-terminus compared to isoform 1.

Source sequence(s)

BF079738, BI467822, CF359659, DN101021, DQ323403, DQ779285, DY425987, EW081362, EW211429

UniProtKB/TrEMBL

A0A287AGL8, A0A8D1HUX0, A0A8D1LYU9

Related

ENSSSCP00000043118.1, ENSSSCT00000061417.3

Conserved Domains (2) summary

pfam03732
Location:197 → 290

Retrotrans_gag; Retrotransposon gag protein

cl21462
Location:89 → 123

bZIP; Basic leucine zipper (bZIP) domain of bZIP transcription factors: a DNA-binding and dimerization domain
NM_001127224.2 → NP_001120696.2 retrotransposon-derived protein PEG10 isoform 3

Status: REVIEWED

Description

Transcript Variant: This variant (2) has two overlapping open reading frames (RF1 and RF2). It uses an alternate donor splice site at the 5' terminal exon and initiates translation from an alternate, upstream AUG compared to variant 1. This isoform (3) derived from RF1/RF2 by -1 translational frameshifting has a longer and distinct N-terminus compared to isoform 1.

Source sequence(s)

BF079738, BI467822, CF359659, DN101021, DQ323403, DQ779285, DY425987, EW081362, EW211429

UniProtKB/TrEMBL

Q0PR72, Q2MJT3

Conserved Domains (3) summary

cd00303
Location:444 → 528

retropepsin_like; Retropepsins; pepsin-like aspartate proteases

pfam03732
Location:197 → 290

Retrotrans_gag; Retrotransposon gag protein

cl21462
Location:89 → 123

bZIP; Basic leucine zipper (bZIP) domain of bZIP transcription factors: a DNA-binding and dimerization domain
NM_001302462.1 → NP_001289391.1 retrotransposon-derived protein PEG10 isoform 1

Status: REVIEWED

Description

Transcript Variant: This variant (1) has two overlapping open reading frames (RF1 and RF2) and initiates translation from a non-AUG (CUG) start codon. This isoform (1) is derived from RF1/RF2 by -1 translational frameshifting.

Source sequence(s)

BF079738, BI467822, CF359659, DN101021, DQ323403, DQ779285, DY425987, EW081362, EW211429

UniProtKB/TrEMBL

Q0PR72, Q2MJT3

Conserved Domains (3) summary

cd00303
Location:402 → 486

retropepsin_like; Retropepsins; pepsin-like aspartate proteases

pfam03732
Location:155 → 248

Retrotrans_gag; Retrotransposon gag protein

cl21462
Location:47 → 81

bZIP; Basic leucine zipper (bZIP) domain of bZIP transcription factors: a DNA-binding and dimerization domain
NM_001302463.1 → NP_001289392.1 retrotransposon-derived protein PEG10 isoform 2

Status: REVIEWED

Description

Transcript Variant: This variant (1) has two overlapping open reading frames (RF1 and RF2) and initiates translation from a non-AUG (CUG) start codon. This isoform (2) produced from RF1 in the absence of -1 translational frameshifting has a shorter C-terminus compared to isoform 1.

Source sequence(s)

BF079738, BI467822, CF359659, DN101021, DQ323403, DQ779285, DY425987, EW081362, EW211429

UniProtKB/TrEMBL

A0A4X1TSH4

Conserved Domains (2) summary

pfam03732
Location:155 → 248

Retrotrans_gag; Retrotransposon gag protein

cl21462
Location:47 → 81

bZIP; Basic leucine zipper (bZIP) domain of bZIP transcription factors: a DNA-binding and dimerization domain