RetrogeneDB ID: retro_ogar_989

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873532.1:26960377..26961164(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000027760
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MRPL10
• Ensembl ID: ENSOGAG00000006173
• Aliases: None
• Description: mitochondrial ribosomal protein L10 [Source:HGNC Symbol;Acc:14055]

Sequence

>retro_ogar_989
ATGGCTACGGCCGTGGCGGGGCATCTGCGAGGAGGTCTCCTGCCCCAAGCGGGCCAGCTCCCTACCCTCCAGAGTGTATG
CCATGGTTCTAAGGCTGTTACCCGCCACTGGCGTGTGATGCACTTTGAGCGACAGAAGCTGATGGCTGTGACTGAGTATA
TCCCCCCCCAAACATGTTGTCAACCCTAGATGCCTGCCACCTCCTCCAAGCCCTCCCAAGGAGGAAACAGACTTCATCCG
ACTCCTTCGCCGAGAGGTAGCACAAGTCTTCCAAGACAACCGAATGATAGCCGTCTGCCAGAATGTGGCCATCAGTGCAG
AAGATAAGCTGCTTATGCGGCACCAACTTCGGAAACACAAGATCCTAATGAAGATCTTCCCCAGCGAGGTTTTGAAGCCT
TTTCTGAAGGAGTCCAAGTATCAAAACCTGCTGCCCCTTTTTGTGGGGCACAACCTGCTGCTGGTGAGTGAAGAGCCCAA
GGTCAAGGAGATGGTCCGGATCTTAAGGATTATGCCTTTCCTGCCGCTGCTAGGTGACTGTATTGATGACACCATCCTCA
GCAGGCAGGGCTTCATCAACTACTCCAAGCTGCCCAGCCTGGCCCTGGTACAAGGGGAGCTGGTAGGAGGCCTCACGCTC
CTCACAGCCCAGACCCACTCCCTACTTCAGCACCAGCCCCTCCAGCTGACCACCTTGTTGGACCAGTACGTCAGACAGCA
ACGTGAGGGGGACTCTGTTGTTTCAGCCAGTGGGAAGCCACATCCTCCTGACCCTGTTGCAGCCTCG

Alignment

ORF - retro_ogar_989 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.06 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MATAVAGHLRGGLLPQAGQLPTLQIVRHGSKAVTRHWRVMHFERQKLMAVTEYIPP-KPAVNPRCLPPPP
          MATAVAGHLRGGLLPQAGQLPTLQ.V.HGSKAVTRHWRVMHFERQKLMAVTEY....K..VNPRCLPPPP
Retrocopy MATAVAGHLRGGLLPQAGQLPTLQSVCHGSKAVTRHWRVMHFERQKLMAVTEYXXX>KHVVNPRCLPPPP

Parental  SPPKEETGFIRLLRREIAQVFQDNRMIAVCQNVAISAEDKLLMRHQLRKHKILMKIFPNEVLKPFLKESK
          SPPKEET.FIRLLRRE.AQVFQDNRMIAVCQNVAISAEDKLLMRHQLRKHKILMKIFP.EVLKPFLKESK
Retrocopy SPPKEETDFIRLLRREVAQVFQDNRMIAVCQNVAISAEDKLLMRHQLRKHKILMKIFPSEVLKPFLKESK

Parental  YQNLLPLFVGHNLLLVSEEPKVKEMVRILRIMPFLPLLGGCIDDTILSRQGFINYSKLPSLALVQGELVG
          YQNLLPLFVGHNLLLVSEEPKVKEMVRILRIMPFLPLLG.CIDDTILSRQGFINYSKLPSLALVQGELVG
Retrocopy YQNLLPLFVGHNLLLVSEEPKVKEMVRILRIMPFLPLLGDCIDDTILSRQGFINYSKLPSLALVQGELVG

Parental  GLTLLTAQTHSLLQHQPLQLTTLLDQYVRQQREGDSVVSASGKPHSPDPVAAS
          GLTLLTAQTHSLLQHQPLQLTTLLDQYVRQQREGDSVVSASGKPH.PDPVAAS
Retrocopy GLTLLTAQTHSLLQHQPLQLTTLLDQYVRQQREGDSVVSASGKPHPPDPVAAS

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_989 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000159111	1 retrocopy	retro_hsap_3234,
Nomascus leucogenys	ENSNLEG00000001803	1 retrocopy	retro_nleu_952,
Otolemur garnettii	ENSOGAG00000006173	1 retrocopy	retro_ogar_989 ,
Pongo abelii	ENSPPYG00000008881	1 retrocopy	retro_pabe_2680,
Pan troglodytes	ENSPTRG00000009337	1 retrocopy	retro_ptro_2186,
Xenopus tropicalis	ENSXETG00000014749	1 retrocopy	retro_xtro_17,