RetrogeneDB ID: retro_mmur_658

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_4459:9113..9911(-)
• Located in intron of: ENSMICG00000009749

Retrocopy information

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

Parental gene information

• Parental gene symbol: TEF
• Ensembl ID: ENSMICG00000013518
• Aliases: None
• Description: thyrotrophic embryonic factor [Source:HGNC Symbol;Acc:11722]

Sequence

>retro_mmur_658
GTCTGCCGGAAACGAATGGAGAACCCCCTGAGCGAGGCACGCCTCGATAAGGAAAAGGGGAAAGAAAAGCTGGAGGAGGA
TGAGGCAGCAGCTGCCAGCACCATGGCAGTCTCAGCCTAACTCATGTCACCCATCTGGGACAAGACCATCCCATATGACG
GCGAGTCTTTCCACCTAGAGTACATGGACCTGGACGAGTTCCTGCTAGAGAATGGCATCCCTGCCAGCCCCACCCACCTG
GCCCAGAACCTGCTGCTTCCTGTGGCCGAGCTAGAAGGAAAGGAATCTGCCAGCTCTTCCACAGCGTCCCCACCATCCTC
CTCCACTGCCATCTTTCAGCCCTCTGAAACTGTGTCCAGCACAGAATCTTCCCTGGAAAAGGAGAGGGAGACTCCCAGTC
CCATTGACCCTAACTGTGTGGAGGTGGACGTGAACTTCAATCCTGACCCTGCTGACCTGGTTCTCTCCAGTGTACCAGGT
GGGGAGCTCTTCAACCCTCGGAAGCACAAGTTTGCAGAGGAGGACCTGAAGCCCCAGACTATGATCAAAAAGGCCAAGAA
GGTCTTTGTCCCCGATGAGCAGAAGGATGAAAAGTACTGGACAAGACGCAAGAAGAACAATGTGGCTGCTAAACGGTCAT
GGGACGCTTGGCGCCTGAAAGAAAATCAGATTACCATCCGGGCGGCCTTCCTGGAGAAGGAGAACACAGCCCTGCGGACG
GAGGTGGCCAAGCTATGCAAGGAGGTGGGCAAGTGCAAGACCATTGTGTCCAAGTATGAGACCAAGTACGGGCCCTTG

Alignment

ORF - retro_mmur_658 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.49 %
• Parental protein coverage: 87.79 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VLKKLMENPPREARLDKEKGKEKLEEDEAAAASTMAVSASLMPPIWDKTIPYDGESFHLEYMDLDEFLLE
          V..K.MENP..EARLDKEKGKEKLEEDEAAAASTMAVSA.LM.PIWDKTIPYDGESFHLEYMDLDEFLLE
Retrocopy VCRKRMENPLSEARLDKEKGKEKLEEDEAAAASTMAVSA*LMSPIWDKTIPYDGESFHLEYMDLDEFLLE

Parental  NGIPASPTHLAQNLLLPVAELEGKESASSSTASPPSSSTAIFQPSETVSSTESSLEKERETPSPIDPNCV
          NGIPASPTHLAQNLLLPVAELEGKESASSSTASPPSSSTAIFQPSETVSSTESSLEKERETPSPIDPNCV
Retrocopy NGIPASPTHLAQNLLLPVAELEGKESASSSTASPPSSSTAIFQPSETVSSTESSLEKERETPSPIDPNCV

Parental  EVDVNFNPDPADLVLSSVPGGELFNPRKHKFAEEDLKPQPMIKKAKKVFVPDEQKDEKYWTRRKKNNVAA
          EVDVNFNPDPADLVLSSVPGGELFNPRKHKFAEEDLKPQ.MIKKAKKVFVPDEQKDEKYWTRRKKNNVAA
Retrocopy EVDVNFNPDPADLVLSSVPGGELFNPRKHKFAEEDLKPQTMIKKAKKVFVPDEQKDEKYWTRRKKNNVAA

Parental  KRSRDARRLKENQITIRAAFLEKENTALRTEVAELRKEVGKCKTIVSKYETKYGPL
          KRS.DA.RLKENQITIRAAFLEKENTALRTEVA.L.KEVGKCKTIVSKYETKYGPL
Retrocopy KRSWDAWRLKENQITIRAAFLEKENTALRTEVAKLCKEVGKCKTIVSKYETKYGPL

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_658 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_658 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	ENSMICG00000013518	1 retrocopy	retro_mmur_658 ,