RetrogeneDB ID: retro_mmur_579

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_4013:51253..51785(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM54
• Ensembl ID: ENSMICG00000011237
• Aliases: None
• Description: transmembrane protein 54 [Source:HGNC Symbol;Acc:24143]

Sequence

>retro_mmur_579
GTACTATGTGGGCGCGACTCTCTGGCTCTGCAGTACTGCACAGTCACCATCCTCTCTGTCACTTCCTCTATCGTGGTCAT
CACCTCTGGCATTGCAGCCATCATGTTGTCACGCCACCTCCCCAGCACCCCTCTGCGCTGGATGGTGTTTAACTGGAGTG
TGGCCTGTGCTCTCCTCTCTCTGACCTGTGCCCTCGTCCTCTTGGCCTCAATCGCTGTGACCTTTGCCACCCAGGGCCAG
GCACTGCCGGCCACCTGAACTTTTGGGAGCCCTGAACTACTGGCCCTCACGCCTGACTGTCCCTTTGACCCCACGTGCAT
TTAAAGCTCCAGCGTGTGCCTCTGGGCCGTCACGCTAGTGCTCTGCATGGTGGAGAGCGTGTTTGCTGTGCGCTGCACCC
AGCTCGCCCACCAGCTGCTGGAACCGAGGCTCTGGTGGGGGGAAAAGCATCCACCATGCGATTCCAGAGAGCCCAGAGCC
CGTGGGGGACCAGGACCTGCTGAGCTGCACCAGCTCTGAGCTGCTCACCATC

Alignment

ORF - retro_mmur_579 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.02 %
• Parental protein coverage: 79.73 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VTAPHDAVALQYCAVNILSVTSAIVVITSGIAAIVLSRYLPSTPLRWTVFSSSVACALLSLTCAIGLLAS
          V....D..ALQYC.V.ILSVTS.IVVITSGIAAI.LSR.LPSTPLRW.VF..SVACALLSLTCA..LLAS
Retrocopy VLCGRDSLALQYCTVTILSVTSSIVVITSGIAAIMLSRHLPSTPLRWMVFNWSVACALLSLTCALVLLAS

Parental  IAVTFATQGRALLADCTFGSPELLALTPDCPFDPTRIYSSSLCLWAIALVLCMVESVFAVRCAQLAHQLL
          IAVTFATQG.AL.A..TFGSPELLALTPDCPFDPT.I.SSS.CLWA..LVLCMVESVFAVRC.QLAHQLL
Retrocopy IAVTFATQGQALPAT*TFGSPELLALTPDCPFDPTCI*SSSVCLWAVTLVLCMVESVFAVRCTQLAHQLL

Parental  ELRPWW-GKSSHHAIPESPEPVEDRDLLSCTSSELLTI
          E.R.WW.GKS.HHAIPESPEPV.D.DLLSCTSSELLTI
Retrocopy EPRLWW>GKSIHHAIPESPEPVGDQDLLSCTSSELLTI

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_579 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_579 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000011237	1 retrocopy	retro_mmur_579 ,