RetrogeneDB ID: retro_mmur_1488

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_683:426991..427451(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TSEN34
• Ensembl ID: ENSMICG00000002409
• Aliases: None
• Description: tRNA splicing endonuclease 34 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:15506]

Sequence

>retro_mmur_1488
CAGGAGCTATAGGAGAAGATTAGAGGGCCAGGCTACCAAGAAGCAGAAGCTAGAACACATGGTTCAGGAACCAGCAGGAG
CCAGAAGGAAGGTGGGGGCCAAGCTGCTGAAAAGAATGAGACCAGTGATGACCAGACTGCTGGACACCAGGAGAAAGCAG
CCCCCTCCTCTTCCCAACTGGGGTCTTCAAATGAGGTGACCCCCTTGCCCAGATCTGCTCTACTTGTGCAGCTGGCTACT
GCGAGGACTCGACCTGTCAAGGCGAGGCCCCTGGACTGGCGTGTCTAGTCCAAAGACTGGCCGCATGCTGGCCGCCCTGC
TCACAAGCTGCGCTACAGCATCTATGGAGACCTGTGGGAACGAGGCCGCTTCTTCAGTGCAGCCGCCAAGTTTCAGGGGT
GATTTCTTGGTCTGTCCTGTGACCTGCTCTGCTTCATGCTACTACATCACTCAGTGCTGG

Alignment

ORF - retro_mmur_1488 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.51 %
• Parental protein coverage: 57.25 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  QELLEKITEGQAAKKQKLEQDSGTSGSQEAGGSQAAEESETSDGQTSGEQEEAAPSSSQPGSSNGVTPLP
          QEL.EKI..............SGTS.SQ..GG.QAAE..ETSD.QT.G.QE.AAPSSSQ.GSSN.VTPLP
Retrocopy QEL*EKIRGPGYQEAEARTHGSGTSRSQKEGGGQAAEKNETSDDQTAGHQEKAAPSSSQLGSSNEVTPLP

Parental  RSALLVQLATARPRPVKARPLDWRVQSKDWPHAGRPAHELRYSIYRDLWERGFFLSAAGKFGGDFLVYPG
          RSALLVQLATAR.RPVKARPLDWRV.SKDWPHAGRPAH.LRYSIY.DLWERG.F.SAA.KF.G.FL....
Retrocopy RSALLVQLATARTRPVKARPLDWRV*SKDWPHAGRPAHKLRYSIYGDLWERGRFFSAAAKFQG*FLGLSC

Parental  DPLRF-HA-HYIAQCW
          D.L.F.HA..YI.QCW
Retrocopy DLLCF<HA<YYITQCW

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_1488 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1488 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000002409	1 retrocopy	retro_mmur_1488 ,
Mus musculus	ENSMUSG00000035585	1 retrocopy	retro_mmus_1629,
Rattus norvegicus	ENSRNOG00000011468	1 retrocopy	retro_rnor_1385,