RetrogeneDB ID: retro_ogar_919

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873530.1:1890237..1891140(-)
• Located in intron of: ENSOGAG00000013273

Retrocopy information

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

Parental gene information

• Parental gene symbol: PAK3
• Ensembl ID: ENSOGAG00000015743
• Aliases: None
• Description: p21 protein (Cdc42/Rac)-activated kinase 3 [Source:HGNC Symbol;Acc:8592]

Sequence

>retro_ogar_919
GGAATTCCTGAGCAGTGGGCACGATTACTCCAAACCTCCAACATAACGAAACTAGAGCAGAAGAAGAACCCCCAAGCTGT
CCTAGATGTTCTCAAATTCTATGATTCCAAAGAAACGGTCAAAAACCAGAAATACATGAGCTTTACGTCAGGAGATAAAA
GCGCACATGGATACATAGCAGCCCATCCTTCGAGTACAAAAACAGCATCTGAGCCTCCTTTGGCTCCTCCTGTGTCTGAA
GAAGAAGATGAAGAAGAGGAAGAAGAAGAAGATGACAATGAGCCCCCACCAGTTATTGCACCAAGGCCAGAGCATACAAA
ATCTGTCTACACGCGTTCTGTGGTTGAATCCATTGCTTCACCAGCAGCACCAAATAAAGAAGTCACACCACCTTCCTCTG
AGAATGCCAATTCCAGTACTTAGTACAGGAACACAGATCGGCAAAGGAAAAAATCCAAGATGACAGATGAGGAGATCTTA
GAGAAGCTAAGAAGCATTGTGAGTGTTGGAGACCCAAAGAAAAAATACACAAGATTTGAAAAAATCGGTCAAGGGGCGTC
AGGTACTGTTTATACAGCACTAGACATTGCAACAGGACAAGAGGTGGCCACAAAGGAGATGAACCTTCAACAGCAACCAA
AAAAAGAATTAATTATTAATGAAATCCTAGTCATGAGGGAAAATAAGAACCCCAATATTGTTAATTATTTAGATAGCTAC
TTAGTGGGTGATGAACTATGGGTAGTCATGGAATACTTGGCTGGTGGCTCATTGACTGATGTGGTCACAGAAACCTGTAT
GGATGAAGGACAGATAGCAGCTGTCTGCAGAGAGTGCCTCCAAGCTTTGGATTTCTTGCACTCAAACCAAGTGATCCATA
GAGACATAAAGAGTGACAATATT

Alignment

ORF - retro_ogar_919 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.69 %
• Parental protein coverage: 53.85 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GIPEQWARLLQTSNITKLEQKKNPQAVLDVLKFYDSKETVNNQKYMSFTSGDKSAHGYIAAHPSSTKTAS
          GIPEQWARLLQTSNITKLEQKKNPQAVLDVLKFYDSKETV.NQKYMSFTSGDKSAHGYIAAHPSSTKTAS
Retrocopy GIPEQWARLLQTSNITKLEQKKNPQAVLDVLKFYDSKETVKNQKYMSFTSGDKSAHGYIAAHPSSTKTAS

Parental  EPPLAPPVSEEEDEEEEEEEDDNEPPPVIAPRPEHTKSIYTRSVVESIASPAAPNKEVTPPSAENANSST
          EPPLAPPVS............DNEPPPVIAPRPEHTKS.YTRSVVESIASPAAPNKEVTPPS.ENANSST
Retrocopy EPPLAPPVSXXXXXXXXXXXXDNEPPPVIAPRPEHTKSVYTRSVVESIASPAAPNKEVTPPSSENANSST

Parental  LYRNTDRQRKKSKMTDEEILEKLRSIVSVGDPKKKYTRFEKIGQGASGTVYTALDIATGQEVAIKQMNLQ
          .YRNTDRQRKKSKMTDEEILEKLRSIVSVGDPKKKYTRFEKIGQGASGTVYTALDIATGQEVA.K.MNLQ
Retrocopy *YRNTDRQRKKSKMTDEEILEKLRSIVSVGDPKKKYTRFEKIGQGASGTVYTALDIATGQEVATKEMNLQ

Parental  QQPKKELIINEILVMRENKNPNIVNYLDSYLVGDELWVVMEYLAGGSLIDVVTETCMDEGQIAAVCRECL
          QQPKKELIINEILVMRENKNPNIVNYLDSYLVGDELWVVMEYLAGGSL.DVVTETCMDEGQIAAVCRECL
Retrocopy QQPKKELIINEILVMRENKNPNIVNYLDSYLVGDELWVVMEYLAGGSLTDVVTETCMDEGQIAAVCRECL

Parental  QALDFLHSNQVIHRDIKSDNI
          QALDFLHSNQVIHRDIKSDNI
Retrocopy QALDFLHSNQVIHRDIKSDNI

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_919 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000015743	1 retrocopy	retro_ogar_919 ,