RetrogeneDB ID: retro_ogar_1768

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873564.1:9044825..9045338(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COPZ1
• Ensembl ID: ENSOGAG00000013468
• Aliases: None
• Description: coatomer protein complex, subunit zeta 1 [Source:HGNC Symbol;Acc:2243]

Sequence

>retro_ogar_1768
GAACCCTCCCTGTATACTGTCAAAGCCATCCTGATTCTGGACAATGATGGAGATCAACTTTTTGCCAAGTACTATTATGG
CACCTACCCCAGTGTCAAGGAGCAAAAGGCATTTGAGAAGAACATTTTCAGCAAGACCCATCAGACCAACAGTGAAATTG
CCCTCTTGGAAGGCCTGACAGTGGTATCCAAAAGCAGTATTGATCTCTATTTCTATGTAATTGGCAGCTCCTATGAAAAT
GAGCTGATGCTTATGGCTGACCTGAACTGCCTCTTCGACTCACTGAGCCAGATGCTGAAGAAAAATGTAGAAAAGTGAGC
TCTGCTGGAGAACATGGAGAGGCTCTTCTTGGCTGTGGATGAAATTGTAGATGGAGGAGTGATCCTAGAGAGTGATCCCC
AGCAAGTGGTAGACTGGGTGGCACTAAGGGGTAAAGATGTGCCCCTCACAGAGCAGACAGTGTCCCAGGTGTTGCAGTCA
GCCAAAGAACAGATTAAATGGTCATTTCTTCGG

Alignment

ORF - retro_ogar_1768 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.66 %
• Parental protein coverage: 96.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EPSLYTVKAILILDNDGDRLFAKYYDDTYPSVKEQKAFEKNIFNKTHRTDSEIALLEGLTVVYKSSIDLY
          EPSLYTVKAILILDNDGD.LFAKYY..TYPSVKEQKAFEKNIF.KTH.T.SEIALLEGLTVV.KSSIDLY
Retrocopy EPSLYTVKAILILDNDGDQLFAKYYYGTYPSVKEQKAFEKNIFSKTHQTNSEIALLEGLTVVSKSSIDLY

Parental  FYVIGSSYENELMLMAVLNCLFDSLSQMLRGYRKNVEKRALLENMEGLFLAVDEIVDGGVILESDPQQVV
          FYVIGSSYENELMLMA.LNCLFDSLSQML....KNVEK.ALLENME.LFLAVDEIVDGGVILESDPQQVV
Retrocopy FYVIGSSYENELMLMADLNCLFDSLSQML---KKNVEK*ALLENMERLFLAVDEIVDGGVILESDPQQVV

Parental  HRVALRGEDVPLTEQTVSQVLQSAKEQIKWSLLR
          ..VALRG.DVPLTEQTVSQVLQSAKEQIKWS.LR
Retrocopy DWVALRGKDVPLTEQTVSQVLQSAKEQIKWSFLR

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_1768 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
Canis familiaris	ENSCAFG00000006536	1 retrocopy	retro_cfam_30,
Otolemur garnettii	ENSOGAG00000013468	1 retrocopy	retro_ogar_1768 ,