RetrogeneDB ID: retro_ogar_2834

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873670.1:2560727..2561713(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000028716
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PTGR1
• Ensembl ID: ENSOGAG00000011144
• Aliases: None
• Description: prostaglandin reductase 1 [Source:HGNC Symbol;Acc:18429]

Sequence

>retro_ogar_2834
ATGGTTCATGCTAAAAGATGGACCCTGAAGAAGCACTTTAAAGGCAACCCTACTAAGGGTGACTTTGAGTTAAAGACAGC
TGAGCTCCCACCCTTAAAAGATGGAGAGGTCCTGCTTGAAGCTTTGTTCCTCACCGTGGATCCTTACATGAGACTTGCAT
CCAAAAAATTAAATGAGGGTGACACGATGATGGGGCAGCAAGTGGCCAGAGTTGTGGAAAGTAAACACACAACCTTACCC
AAAGGAACTATCGTAGTGGCATTTTTAGGCTGGACATTGCACTCCATTTCTGATGGCAAAGAATTGGAAAAGCTGCCGAC
AGAATGGCCAGATACAGTACCACTGTCTTTGGGTCTGGGGACCGTTGGTATCCAGGCATAACTGCCTACTTTGGCCTACT
CCACATCTGTGGTGTGAAGGGTGGAGAAACACTGATGGTTAATGCAGCAGCAGGAGCCGTGGGCTCTGTTGTTGGGCAGA
TAGCAGAGCTCAAGGGCTGCAAAGTTGTTGGAGCAGCAGGGTCTGATGAGAAGGTTGCCCACCTTAAAAACCTTGGATGT
GATGTTGCCTTCAACTATAAGACAGTAGCATCTTTGGCGGAAACCTTTCAAAAAGCCTCTCCTGATGGTTATGATTGTTA
TTTTGATAATGTAGGCGGAGAGTTTTCAAACATTGTTATCCCTCAGGTGAAAAAATTTGGAGGAATTGCTATATGTGGGG
CCATCTCTACACAGAACAGTACTGGCCAACTTCCACCAGGCCCAACCCCAGGGGTTGTTACCTACCAAGAACTCGGCATG
GAGGGGTTCCTTGCCACCTGTTGGCAAGGAGAAGGCCGCCAAAAAGCTCTGAAGGATTTGCTGAAATGGGGGTTGGAGGG
TAAAATCCAGTACCATGAATATGTCATTGAAGGATCTGAAAACACGCCAGATGCATTTATGGGAATGCTGAAAGGAGATA
ATTTGGGGAAAACAATAGTGAAAGCC

Alignment

ORF - retro_ogar_2834 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.82 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MVHAKRWTLKKHFKGNPTKGDFELKTAELPPLKDGEVLLEALFLTVDPYMRLASKKLNEGDTMMGQQVAR
          MVHAKRWTLKKHFKGNPTKGDFELKTAELPPLKDGEVLLEALFLTVDPYMRLASKKLNEGDTMMGQQVAR
Retrocopy MVHAKRWTLKKHFKGNPTKGDFELKTAELPPLKDGEVLLEALFLTVDPYMRLASKKLNEGDTMMGQQVAR

Parental  VVESKNSTLPKGTIVVAFLGWTSHSISDGKDLERLPTEWPDTIPLSLGLGTVGM-PGITAYFGLLDICGV
          VVESK..TLPKGTIVVAFLGWT.HSISDGK.LE.LPTEWPDT.PLSLGLGTVG..PGITAYFGLL.ICGV
Retrocopy VVESKHTTLPKGTIVVAFLGWTLHSISDGKELEKLPTEWPDTVPLSLGLGTVGI<PGITAYFGLLHICGV

Parental  KGGETVMVNAAAGAVGSVVGQIAKLKGCKVVGAAGSDEKVAHLKKLGFDVAFNYKTVASLAETLKKASPD
          KGGET.MVNAAAGAVGSVVGQIA.LKGCKVVGAAGSDEKVAHLK.LG.DVAFNYKTVASLAET..KASPD
Retrocopy KGGETLMVNAAAGAVGSVVGQIAELKGCKVVGAAGSDEKVAHLKNLGCDVAFNYKTVASLAETFQKASPD

Parental  GYDCYFDNVGGEFSNIVIPQMKKFGRIAICGAISTYNSTGQLPPGPSPEVVIYQELHMEGFLATRWQGEA
          GYDCYFDNVGGEFSNIVIPQ.KKFG.IAICGAIST.NSTGQLPPGP.P.VV.YQEL.MEGFLAT.WQGE.
Retrocopy GYDCYFDNVGGEFSNIVIPQVKKFGGIAICGAISTQNSTGQLPPGPTPGVVTYQELGMEGFLATCWQGEG

Parental  RQKALKDLLKWVLEGKIQYHEYVIEGFENMPDAFMGMLKGDNLGKTIVKA
          RQKALKDLLKW.LEGKIQYHEYVIEG.EN.PDAFMGMLKGDNLGKTIVKA
Retrocopy RQKALKDLLKWGLEGKIQYHEYVIEGSENTPDAFMGMLKGDNLGKTIVKA

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_2834 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 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003000	2 retrocopies	retro_cfam_1290, retro_cfam_1876,
Callithrix jacchus	ENSCJAG00000017571	1 retrocopy	retro_cjac_1653,
Echinops telfairi	ENSETEG00000006136	1 retrocopy	retro_etel_358,
Felis catus	ENSFCAG00000004339	1 retrocopy	retro_fcat_1898,
Homo sapiens	ENSG00000106853	1 retrocopy	retro_hsap_219,
Nomascus leucogenys	ENSNLEG00000017487	1 retrocopy	retro_nleu_2424,
Otolemur garnettii	ENSOGAG00000011144	1 retrocopy	retro_ogar_2834 ,
Otolemur garnettii	ENSOGAG00000014524	1 retrocopy	retro_ogar_3340,
Pongo abelii	ENSPPYG00000019499	1 retrocopy	retro_pabe_283,