RetrogeneDB ID: retro_ogar_1374

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873544.1:21931810..21932433(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TTC33
• Ensembl ID: ENSOGAG00000011946
• Aliases: None
• Description: tetratricopeptide repeat domain 33 [Source:HGNC Symbol;Acc:29959]

Sequence

>retro_ogar_1374
ATGGCTTCTTTTGGGTGGAAGAGGAAGATTGGTGAAAAGATCTCAAAGGTCACTTCCCAGCAGTTTGAAGCTGAAGCTGC
TGATGAGAAGATGTGGTTGAGAAAGATGAAGGGAACTGGCTTCATGCCATTAAACGCAGGAGAGAAATTCTCCTTGAAGG
CTCTGCTGAGAAAAGTAAACAGCTGAAAGATGAAGGAGCCAATTTGGCTGAAAATAAAAGATACCGGGAGGCAATTCAGA
AGTGGGATGAAGCGCTACAGTTGACCCCAAATGATGCCACCTTGTATGAGATGAAATCCCAGGTCCTAATGTCTCTTCCT
GAAATGTTCCCAGCAGTACATGCAGCTGAAAGGGCTGTTCAGCAAAATCCACATTCCGGGGAGTTTTGGCCAACTTTGGG
ACGGGCTCACCTTGGATCAGGAGAGATAATCCTGGCTATTTGAAGTTTCCAGGTAGCTCTTCACATCTATCCAATGAACC
CTGAACTATGGAAAGAAGACCTGTCTTGGGCAAGAACACTCCAGGAGCAAGAGAAAGTAGTGCAGAAGATTAAAAAAAGT
GAAGCACCCCTTGAAGAAGCACCACACTATGACTTTGAAAGTGATGAGATTGTTGCTGTTTGC

Alignment

ORF - retro_ogar_1374 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.2 %
• Parental protein coverage: 81.85 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MASFGWKRKIGEKVSKVTSQQFEAEAADEK-DAVEKDEGNWLHAIKRRREILLEGSAEKSKQLKDEGATL
          MASFGWKRKIGEK.SKVTSQQFEAEAADEK.D.VEKDEGNWLHAIKRRREILLEGSAEKSKQLKDEGA.L
Retrocopy MASFGWKRKIGEKISKVTSQQFEAEAADEK<DVVEKDEGNWLHAIKRRREILLEGSAEKSKQLKDEGANL

Parental  AENKRYREAIQKWDEALQLTPDDATLYEMKSQVLMSLHEMFPAVHAAEMAVQRNPHSWESWQTLGRAQLG
          AENKRYREAIQKWDEALQLTP.DATLYEMKSQVLMSL.EMFPAVHAAE.AVQ.NPHS.E.W.TLGRA.LG
Retrocopy AENKRYREAIQKWDEALQLTPNDATLYEMKSQVLMSLPEMFPAVHAAERAVQQNPHSGEFWPTLGRAHLG

Parental  LGEIILAIRSFQVALHIYPMNPEIWKEDLSWARTLQEQQKVAQKIKKSEAPPEEAPKSIPDYDFESDEIV
          .GEIILAI.SFQVALHIYPMNPE.WKEDLSWARTLQEQ.KV.QKIKKSEAP.EEAP.....YDFESDEIV
Retrocopy SGEIILAI*SFQVALHIYPMNPELWKEDLSWARTLQEQEKVVQKIKKSEAPLEEAP----HYDFESDEIV

Parental  AVC
          AVC
Retrocopy AVC

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_1374 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000007398	1 retrocopy	retro_cjac_1680,
Otolemur garnettii	ENSOGAG00000011946	1 retrocopy	retro_ogar_1374 ,