RetrogeneDB ID: retro_ogar_3024

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873698.1:337693..338364(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000007358
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000031566
• Aliases: None
• Description: None

Sequence

>retro_ogar_3024
GCCCTTTGAGATGCCAAACTAGACAAGTCACAGATTCATGACATTGTCCTGGTTGGTGGTTCTACCCATATCCCCAAGAT
TCAAAAGCTTCTCCAAGCTTCTTCAATGGAAAAGAATGGAATAAGAGCATCAATCCTGATGAGGCTATTGCTTACAGTGT
AGCTGTCCAGGCGGCCATTCTATCTGGAGACAAATCCGAGAATGTTCAGGATTTGCTACTATTGGATGTCACTCCTCTTT
CTCTGGGTATTGAGACTGCTGGTGGAGTTATGACTGTGCTCATTAAGTGCAATACTACTATTCCTACCAAGCAGACACAG
ACCTTCACTACCTACTCTGACAACCAGCTGGGGGTGCTCAGCCAGGTTTATGAAGGTGAGCATGCCATGACCAAGGATAA
CAACTTGGTTGGCAAGTTTGAACTTACAGGCATACCTCCTGCTCCCTGTGGTGTTCCTCAGATTGAAGTCACTTTTGATA
TTGATGCCAATGGGATTCTCAATATCTCTGCTGTGGATAAGAGTACAGGAAAAGAAAATAAGATTACCATCACTAATGAC
AAGGGACGTTTGAGCAAGGAAGACATTGAACAGATGGTCCAGGAAGCTGAGAAGTACAAGGCTGAAGATGAGAAGCAGAG
GGACAAGGTCTCATCAAAGAACTCACTTGAT

Alignment

ORF - retro_ogar_3024 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.44 %
• Parental protein coverage: 59.57 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ALRDAKLDKSQIHDIVLVGGSTRIPKIQKLLQ-DFFNGKELNKSINPDEAVAYGAAVQAAILSGDKSENV
          AL.DAKLDKSQIHDIVLVGGST.IPKIQKLLQ..FFNGKE.NKSINPDEA.AY..AVQAAILSGDKSENV
Retrocopy AL*DAKLDKSQIHDIVLVGGSTHIPKIQKLLQ<SFFNGKEWNKSINPDEAIAYSVAVQAAILSGDKSENV

Parental  QDLLLLDVTPLSLGIETAGGVMTVLIKRNTTIPTKQTQTFTTYSDNQPGVLIQVYEGERAMTKDNNLLGK
          QDLLLLDVTPLSLGIETAGGVMTVLIK.NTTIPTKQTQTFTTYSDNQ.GVL.QVYEGE.AMTKDNNL.GK
Retrocopy QDLLLLDVTPLSLGIETAGGVMTVLIKCNTTIPTKQTQTFTTYSDNQLGVLSQVYEGEHAMTKDNNLVGK

Parental  FELTGIPPAPRGVPQIEVTFDIDANGILNVSAVDKSTGKENKITITNDKGRLSKEDIERMVQEAEKYKAE
          FELTGIPPAP.GVPQIEVTFDIDANGILN.SAVDKSTGKENKITITNDKGRLSKEDIE.MVQEAEKYKAE
Retrocopy FELTGIPPAPCGVPQIEVTFDIDANGILNISAVDKSTGKENKITITNDKGRLSKEDIEQMVQEAEKYKAE

Parental  DEKQRDKVSSKNSLE
          DEKQRDKVSSKNSL.
Retrocopy DEKQRDKVSSKNSLD

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_3024 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000031566	8 retrocopies	retro_ogar_1036, retro_ogar_202, retro_ogar_2137, retro_ogar_2223, retro_ogar_2693, retro_ogar_3024 , retro_ogar_3242, retro_ogar_458,
Rattus norvegicus	ENSRNOG00000034066	1 retrocopy	retro_rnor_1221,