RetrogeneDB ID: retro_ogar_2737

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873657.1:1104106..1104759(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000024979
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000031992
• Aliases: None
• Description: None

Sequence

>retro_ogar_2737
GCCAAACCCAAGCTCTGTTACCGCCATGGCAGGGGCAGAATGGAGTCTGTCCGGGGGCCGCTGGCTGCAGCGGGAGTGGA
GTTTGAAGAATTTTTTGAAACAAGAGAACAATATGAAAAGTTGCAGAAGGATGGACGCCTGTTTTTCGGCCAAGTGCCTT
TGGTTGAAATTGATGGAATGGCACTGCCGCAGACTAGAGCCATCCTCGGCTACCTCACTGCTAAGTGTGACCTCCACGGG
AAGCACTGAAGGAGAGTCGGGTCCACATGTACACCAATGGCACCCTGGATCTGATGGTGATGATGATAGCAGGGGCGCCC
TTCAAACCTCCTAAAGAAAGAGGAGGCCTTAGCTTTAGTGGTGAAGAAAGATAAAACCCGCTACTTGCCTATCTTTGAAA
AGATTTTGAAAGACCACGGAGAAGATTTTCTCTTTGGCAACAAATTCAGTTGGGCAGATGCACAATTGCTGGAAGCTATT
TTAATGGTGGAAGAATTGGAATCTTCTATTCTTTCTGACTTCCCTTTGCTAAAGGCATTTAAAACACGTATCAGCAACAT
CCCACAATTAAGAAGTTCCTGCAGCCTGGGAGTCCAAGGAAGCCACCCCCGGACAATCACTATGTAGAAGCAGTCAAGAA
CATTCTGCAGTTC

Alignment

ORF - retro_ogar_2737 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.58 %
• Parental protein coverage: 99.12 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  AKPKLYYFHGRGRMESVRWLLAAAGVEFEEEFFETREQYEKLQKAQTADGRLLFGQVPLVEIDGMALTQT
          AKPKL.Y.HGRGRMESVR..LAAAGVEFEE.FFETREQYEKLQK....DGRL.FGQVPLVEIDGMAL.QT
Retrocopy AKPKLCYRHGRGRMESVRGPLAAAGVEFEE-FFETREQYEKLQK----DGRLFFGQVPLVEIDGMALPQT

Parental  RAILSYLASKYDLYGKD-LKERVRIDMYTDGTLDLM-MMIAGAPFKPPKEK-EEALAVVVKKAKTRYLPV
          RAIL.YL..K.DL.GK..LKE..R..MYT.GTLDLM.MMIAGAPFKPPKE..E....VV.KK.KTRYLP.
Retrocopy RAILGYLTAKCDLHGKH<LKES-RVHMYTNGTLDLMVMMIAGAPFKPPKER>EALALVV-KKDKTRYLPI

Parental  FEKILKDHGEDFLVGNKFSWADVQLLEAILMVEELDASVLSDFPLLKAFKTRISNI-PTIKKFLQPGSPR
          FEKILKDHGEDFL.GNKFSWAD.QLLEAILMVEEL..S.LSDFPLLKAFKTRISNI.PTIKKFLQPGSPR
Retrocopy FEKILKDHGEDFLFGNKFSWADAQLLEAILMVEELESSILSDFPLLKAFKTRISNI<PTIKKFLQPGSPR

Parental  KPPPDSHYVEVVRNILQF
          KPPPD.HYVE.V.NILQF
Retrocopy KPPPDNHYVEAVKNILQF

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_2737 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
Callithrix jacchus	ENSCJAG00000034823	2 retrocopies	retro_cjac_2783, retro_cjac_2841,
Otolemur garnettii	ENSOGAG00000003726	1 retrocopy	retro_ogar_345,
Otolemur garnettii	ENSOGAG00000031992	1 retrocopy	retro_ogar_2737 ,
Rattus norvegicus	ENSRNOG00000030449	1 retrocopy	retro_rnor_165,