RetrogeneDB ID: retro_ogar_3477

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873892.1:137070..138162(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000034137
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: AGPAT5
• Ensembl ID: ENSOGAG00000008958
• Aliases: None
• Description: 1-acylglycerol-3-phosphate O-acyltransferase 5 [Source:HGNC Symbol;Acc:20886]

Sequence

>retro_ogar_3477
ATGCTGCTGTCCCTGGTGCTCCACACGTACTCTATGCGCTACCTGCTGCCGGGCATGGTGCTCCTGGGCACGGCGCCCAC
CTACGTGCTGGCCTGGGGGGTCTGGCGGCTGCTGTCCGCCTTCCTGCCCGCGCGTTTCTACCAGGCGGTGGACGACCGGC
TCTACCGCATCTACCAGAACATGGTGCTCTTCTTCTTCGAGAACTACACCGGGGTCCAGATATTCCTATATGGAGATTTG
CCAAAAAATAAAGAAAATGTAATATATTTAGCAAATCATCAAAGCACAGTTGACTGGATTATTGCCGACATGTTGGCCTC
TAGGCAGGATGCTCTTGGACATGTGCGCTATGTGCTGAAAGATGGGTTAAAGTGGCTTCCTTTGTATGGTTGTTATTTTT
CTCAGCATGGAGGAATCTATGTAAAGCGAAGTGCCAAATTTAATGAAAGAGAAATGAGAAACAAACTACAGAGCTACGTG
GATGCAGGAACTCCCATGTATCTTGTGATTTTCCCAGAAGGTACGAGGTATAATCCAGAACAAACAAAAATCCTTTCAAC
TAGTCAGGCATTTGCAGCTGAACAAGGCCTTGCAGTATTAAAATATGTGCTGACACCACGAATAAAGGCAACTTATGTTG
CTTTTGATGCTATGAAGAATTACTTAGATGCAGTTTATGATGTTACAGTGGTTTATGAAGGGAAAGGTGATAGAGGGCAG
CGAAAAGAGCCCCCCTCCATGACTGAATTTCTCTGCAAAGAATGTCCAAAAGTTCATATTCACGTTGATCGTATAGACAA
AAAGGATGTCCCAGAACAGCAAGAATGTATGAGAAGATGGCTTCATGAGCGTTTTGAAATAAAAGATAAGATGCTTATAG
AATTCTATGATTCACCAGATCCAGAAAGAAGAAACAAGTTTCCTGGGGAAAGTGTTAATTCCAAATTAAGTATCAAGAAG
ACTTTACCATCAGTATTGATCTTAAGTGGTTTGACTGCGGGCATGCTTATGACTGAGACTGGCAGGAAACTGTACGTGAA
CACGTGGATGTACGGCACCTTGCTGGGCTGCCTGTGGGTCACTGTCAAGGCG

Alignment

ORF - retro_ogar_3477 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.73 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLLSLVLHTYSMRYLLPGMVLLGTAPTYVLAWGVWRLLSAFLPARFYQAVDDRLYCIYQNMVLFFFENYT
          MLLSLVLHTYSMRYLLPGMVLLGTAPTYVLAWGVWRLLSAFLPARFYQAVDDRLY.IYQNMVLFFFENYT
Retrocopy MLLSLVLHTYSMRYLLPGMVLLGTAPTYVLAWGVWRLLSAFLPARFYQAVDDRLYRIYQNMVLFFFENYT

Parental  GVQIFLYGDLPKNKENVIYLANHQSTVDWIIADMLASRQDALGHVRYVLKDGLKWLPLYGCYFSQHGGIY
          GVQIFLYGDLPKNKENVIYLANHQSTVDWIIADMLASRQDALGHVRYVLKDGLKWLPLYGCYFSQHGGIY
Retrocopy GVQIFLYGDLPKNKENVIYLANHQSTVDWIIADMLASRQDALGHVRYVLKDGLKWLPLYGCYFSQHGGIY

Parental  VKRSAKFNEREMRNKLQSYVDAGTPMYLVIFPEGTRYNPEQTKILSTSQAFAAEQGLAVLKYVLTPRIKA
          VKRSAKFNEREMRNKLQSYVDAGTPMYLVIFPEGTRYNPEQTKILSTSQAFAAEQGLAVLKYVLTPRIKA
Retrocopy VKRSAKFNEREMRNKLQSYVDAGTPMYLVIFPEGTRYNPEQTKILSTSQAFAAEQGLAVLKYVLTPRIKA

Parental  TYVAFDAMKNYLDAVYDVTVVYEGKGDRGQRKEPPSMTEFLCKECPKVHIHVDRIDKKDVPEQQECMRRW
          TYVAFDAMKNYLDAVYDVTVVYEGKGDRGQRKEPPSMTEFLCKECPKVHIHVDRIDKKDVPEQQECMRRW
Retrocopy TYVAFDAMKNYLDAVYDVTVVYEGKGDRGQRKEPPSMTEFLCKECPKVHIHVDRIDKKDVPEQQECMRRW

Parental  LHERFEIKDKMLIEFYDSPDPERRNKFPGESVNSKLSIKKTLPSVLILSGLTAGMLMTETGRKLYVNTWM
          LHERFEIKDKMLIEFYDSPDPERRNKFPGESVNSKLSIKKTLPSVLILSGLTAGMLMTETGRKLYVNTWM
Retrocopy LHERFEIKDKMLIEFYDSPDPERRNKFPGESVNSKLSIKKTLPSVLILSGLTAGMLMTETGRKLYVNTWM

Parental  YGTLLGCLWVTVKA
          YGTLLGCLWVTVKA
Retrocopy YGTLLGCLWVTVKA

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_3477 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000005142	1 retrocopy	retro_chof_376,
Dasypus novemcinctus	ENSDNOG00000004979	1 retrocopy	retro_dnov_823,
Otolemur garnettii	ENSOGAG00000008958	1 retrocopy	retro_ogar_3477 ,
Pongo abelii	ENSPPYG00000018320	1 retrocopy	retro_pabe_3671,
Sarcophilus harrisii	ENSSHAG00000000051	1 retrocopy	retro_shar_687,
Tupaia belangeri	ENSTBEG00000013084	1 retrocopy	retro_tbel_2948,