RetrogeneDB ID: retro_mmur_550

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_3792:298950..299352(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: PSMD10
• Ensembl ID: ENSMICG00000002059
• Aliases: None
• Description: proteasome (prosome, macropain) 26S subunit, non-ATPase, 10 [Source:HGNC Symbol;Acc:9555]

Sequence

>retro_mmur_550
AACGGGCAGCTAGAGTAGTTGAAGGAGAGGATCCTGGCCAATAAATCCCTGGCTACTAGAACTGACCAGGACAGCAGAAC
TGCCTTGCATTGGGCATGGTCAGCAGGACATACAGAAATTGTTGAATTCTTGTTGCAGCTTGGCGTGCCAGTGAATGATA
AAGATGATGCAGGTTGGTTTCCACTTCATATTGCTGCTTCTGCTGGCTGGGATGAGATTTTAAAAGCCCTTCTGGGAAAA
GGTGCTCAAGTGAATGCTGTCAATCAAAATGGCCGTACTCCCCTACATTATGCAGCTTCCAAAAACAGGCATGAGATTGC
TGTCATGTTGCTGGAAGGTGGCGCTAATCCAGATGCTAAGGACCATTATGAGGCTACAGCAATGCACTGGGCAGCAGCCA
AG

Alignment

ORF - retro_mmur_550 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.04 %
• Parental protein coverage: 58.74 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SGKLEELKERILADKSLATRTDQDSRTALHWACSAGHTEIVEFLLQLGVPVNDKDDAGW-SLH-AASAGR
          .G.LE.LKERILA.KSLATRTDQDSRTALHWA.SAGHTEIVEFLLQLGVPVNDKDDAGW..LH.AASAG.
Retrocopy NGQLE*LKERILANKSLATRTDQDSRTALHWAWSAGHTEIVEFLLQLGVPVNDKDDAGWFPLHIAASAGW

Parental  DEI-KALLGKGAQVNAVNQNGCTPLHYAASKNRHEIAVMLLEGGANPDAKDHYEATAMHRAAAK
          DEI.KALLGKGAQVNAVNQNG.TPLHYAASKNRHEIAVMLLEGGANPDAKDHYEATAMH.AAAK
Retrocopy DEILKALLGKGAQVNAVNQNGRTPLHYAASKNRHEIAVMLLEGGANPDAKDHYEATAMHWAAAK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_550 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_550 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000012006	1 retrocopy	retro_acar_134,
Callithrix jacchus	ENSCJAG00000007717	1 retrocopy	retro_cjac_2515,
Cavia porcellus	ENSCPOG00000015068	1 retrocopy	retro_cpor_358,
Dasypus novemcinctus	ENSDNOG00000001902	5 retrocopies	retro_dnov_1194, retro_dnov_208, retro_dnov_705, retro_dnov_824, retro_dnov_835,
Microcebus murinus	ENSMICG00000002059	1 retrocopy	retro_mmur_550 ,
Myotis lucifugus	ENSMLUG00000014534	1 retrocopy	retro_mluc_2008,
Macaca mulatta	ENSMMUG00000016981	1 retrocopy	retro_mmul_1290,
Oryctolagus cuniculus	ENSOCUG00000010837	1 retrocopy	retro_ocun_793,
Otolemur garnettii	ENSOGAG00000006419	1 retrocopy	retro_ogar_213,
Procavia capensis	ENSPCAG00000005221	1 retrocopy	retro_pcap_461,