RetrogeneDB ID: retro_ogar_2807

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873665.1:4263729..4264347(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000024525
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MRPS35
• Ensembl ID: ENSOGAG00000010630
• Aliases: None
• Description: mitochondrial ribosomal protein S35 [Source:HGNC Symbol;Acc:16635]

Sequence

>retro_ogar_2807
TTGGTGGCCTCTGCTCTTGCGGTGTGGCTGGCTCTGCAGCCGGGGGCCAGAAGCCTGCATGCATTCTCCATCGACGCGTG
CCCACAGGTTCTAAGACTTAACCCGCAAAGAAAATCCAAAACTGAACGGCCACCAAAAAGAAAGGCACTGCCTCCAAGGA
CAGAGAAAATGTCTGTTGACCAGGACTGGCCTAGCATTTACCCTGTTGCAGTGCCATTTAAACCCTTTACAGTACCTCTT
CCTGTCCGAATGGGCTATCCGGTAAAAAAGGGCGTGCCCAGGGCCAAGGAGGGAAATCTAGAACTTTCAAAGATCCCCAA
TTTTCTGCATTTGACTCCTGTAGCGATTAAAAAGCACTGCGAAGCTCTTAAAGATTTTTGCACTGAGTGGCTAGCTGCAC
TGGACAGTGATGAGAAATGTGAAAAGCATATTCCAATTGAAATTGACACTGCTGATTATGTTCCATCAGGACCATCTGTT
CAAAACCCCAAAGCACCAGTAGTAACCTTAAGGGTTAAACTTTCCAGTTTGAGCTTAGATGACCATGCAAGGAAGAAGCT
TACTAAACTTGTCGGAGAAGGATACTGTAAGACCACAGATGTGTTTACCATCAAAACA

Alignment

ORF - retro_ogar_2807 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.65 %
• Parental protein coverage: 64.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAASALAACLALQPGARSLRAFSIAASPQVPGLNSRTTERTSKTERPPKRKALPPRTEKMSVDQDWPSVY
          ..ASALA..LALQPGARSL.AFSI.A.PQV..LN.....R.SKTERPPKRKALPPRTEKMSVDQDWPS.Y
Retrocopy LVASALAVWLALQPGARSLHAFSIDACPQVLRLNP---QRKSKTERPPKRKALPPRTEKMSVDQDWPSIY

Parental  PVAAPFKPSTVPLPVRMGYPVKKGVPMAKEGNLELLKIPNFLHLTPVAIKKHCEALKDFCTEWPAALDSD
          PVA.PFKP.TVPLPVRMGYPVKKGVP.AKEGNLEL.KIPNFLHLTPVAIKKHCEALKDFCTEW.AALDSD
Retrocopy PVAVPFKPFTVPLPVRMGYPVKKGVPRAKEGNLELSKIPNFLHLTPVAIKKHCEALKDFCTEWLAALDSD

Parental  EKCEKHFPIEIDTADYVSSGPSVRNPKARVVTLRVKLSSLNLDDHARKKLIKLVGERYCRTTDVLTIKT
          EKCEKH.PIEIDTADYV.SGPSV.NPKA.VVTLRVKLSSL.LDDHARKKL.KLVGE.YC.TTDV.TIKT
Retrocopy EKCEKHIPIEIDTADYVPSGPSVQNPKAPVVTLRVKLSSLSLDDHARKKLTKLVGEGYCKTTDVFTIKT

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_2807 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000005034	1 retrocopy	retro_etel_2145,
Loxodonta africana	ENSLAFG00000010490	1 retrocopy	retro_lafr_449,
Oryctolagus cuniculus	ENSOCUG00000016214	1 retrocopy	retro_ocun_866,
Otolemur garnettii	ENSOGAG00000010630	2 retrocopies	retro_ogar_1121, retro_ogar_2807 ,