RetrogeneDB ID: retro_ogar_1541

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873550.1:5603048..5603692(-)
• Located in intron of: ENSOGAG00000008526

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL24
• Ensembl ID: ENSOGAG00000016825
• Aliases: None
• Description: mitochondrial ribosomal protein L24 [Source:HGNC Symbol;Acc:14037]

Sequence

>retro_ogar_1541
ATGCGTCTCTCTGCCTTGCTAGCCTTGGCATCAAGGTTACTCTGCCCCCCAATTACCGCTATGGAATGAGCCGCCCAGGC
TCCCTGGCAGACAAAAGGAAGAACCCCCCAGGGACCAGACGGCGCCCAGTGGCTGTAGAACCCATCTCTGATGAAGACTA
GCATCTGTTATGTGGGGACATGGTGAAGATTCTAGAAGGCAAGGATGCTGGGAAGCAGGGCAAAGTGGTTCAAGTTATCC
GGCAGCGAAACTGGGTGGTCCTGGAAGGGCTGAACACACATTACCGCTACAATGGCAGGACTAAAGATTACAGGGAAACC
ATGATTCCTAGTGAAGTCCCCTTGCTCCACCACCAAGTCAAACTTGTGGATCCTGTGGACAGGAAACCCACTGAGATTGA
GTGGAGATTTACTGAGGCAGGAGAGCGGGTACAAGTTTCCACGAGATCAGGGAGAATTATCCCCAAACCTGATTTTCCCA
GATCTGATGGCATCATCCCTGAAACCTGGATTGATGGCCCCAAAGATACATCAGAAGATGCTCTAGAAAAAACCTATGTG
CCCCATCTAAAGACACTGCAGGAAGAAGTGATGGAGGCTATGGGGATCCAGGAGACCTGGAGATATAAGAAAGTCTATTG
GTAT

Alignment

ORF - retro_ogar_1541 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.18 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MRLSALLALAS-KVTLPPNYRYGMSRPGSLADKRKNPPGTRRRPVAVEPISDEDWHLFCGDMVEILEGKD
          MRLSALLALAS.KVTLPPNYRYGMSRPGSLADKRKNPPGTRRRPVAVEPISDED.HL.CGDMV.ILEGKD
Retrocopy MRLSALLALAS<KVTLPPNYRYGMSRPGSLADKRKNPPGTRRRPVAVEPISDED*HLLCGDMVKILEGKD

Parental  AGKQGKVVQVIRQRNWVVLEGLNTHYRYIGRTKDYRGTMIPSEAPLLHHQVKLVDPVDRKPTEIEWRFTE
          AGKQGKVVQVIRQRNWVVLEGLNTHYRY.GRTKDYR.TMIPSE.PLLHHQVKLVDPVDRKPTEIEWRFTE
Retrocopy AGKQGKVVQVIRQRNWVVLEGLNTHYRYNGRTKDYRETMIPSEVPLLHHQVKLVDPVDRKPTEIEWRFTE

Parental  AGERVRVSTRSGRIIPKPDFPRSDGIVPETWIGSTDGPKDTSVEDALEKTYVPRLKTLQEEVMEAMGIQE
          AGERV.VSTRSGRIIPKPDFPRSDGI.PETWI...DGPKDTS.EDALEKTYVP.LKTLQEEVMEAMGIQE
Retrocopy AGERVQVSTRSGRIIPKPDFPRSDGIIPETWI---DGPKDTS-EDALEKTYVPHLKTLQEEVMEAMGIQE

Parental  TRRYKKVYWY
          T.RYKKVYWY
Retrocopy TWRYKKVYWY

Legend:

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

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_1541 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii 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
Equus caballus	ENSECAG00000011340	1 retrocopy	retro_ecab_495,
Macaca mulatta	ENSMMUG00000000039	1 retrocopy	retro_mmul_1731,
Otolemur garnettii	ENSOGAG00000016825	1 retrocopy	retro_ogar_1541 ,