RetrogeneDB ID: retro_ogar_2423

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873621.1:226462..227400(-)
• Located in intron of: ENSOGAG00000015330

Retrocopy information

• Ensembl ID: ENSOGAG00000026920
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PRKAR2A
• Ensembl ID: ENSOGAG00000006822
• Aliases: None
• Description: protein kinase, cAMP-dependent, regulatory, type II, alpha [Source:HGNC Symbol;Acc:9391]

Sequence

>retro_ogar_2423
CCTAACAGATTTAATAGGCGAGTATCAGTCTGTGCTGAGACTTACAACCCTGATGAGGAAGAGAAAGATACTGATCCAAG
GGTGATTCATCCTAAAACTGATGAACAGAGATGCAGATGTCAGGAAGCTTGCAAAGATACTCTTCTTTTCAAAAATCTTG
ATCAGGAACAGCTTTCTCAAGTCCTTGATGCCATGTTTGAAAGGATAGTCACAGTTGATGGGCATGTTATTGACCAAGGA
GATGAAGGAGACAACTTTTATGTCATAGAACAGGGAACCTATGATATTTTGGTAACAAAGGATAATGAAACCCGTTGTGT
TGGTCAGCATGATAACCGGGCAGTTTTGGAGAATTAGCTCTGATGTACAATACCCCGAGAGCTGCCATTGTTGCCACTCC
AGAAGGCTCTCTTTGGGGACTGGACTGGTTGACTTTTAGAAGAATCATAGTGAAAAACAATGCAAAAAAGAGGAAGATGT
TTGAATCATTTATTGAGTCTGTGCCCCTTCTTAAATCTCTAGAGGTATCAGAACGAATGAAAATTGTGGATGTAAGAGGA
GAGAAGATTTATAAGGATGGAGAGCGCATAATCACTCAGGGTGAAAAGCCTGATAGCTTTTATATCATAGAGTCTGGTGA
AGTGGGCATTTTGCTTAAAAGCAAGAGTAAAACAAACAAGGACAATGGGAACCTAAAAGTTGAGATTGCCCGCTGTCCCA
AGGGGCAGTGCTTTGGAGAGGTTCCACTGGTCACGAACAAACCCAGAGCTGCTTCTGCTTATGCAACTGGAGATGTCAAA
TGCTTAGTTATGGATGTACAAGCATTTGAGAGGCTTCTGGGGCTCTGCATGGACATCATGAAGAGGAATATCTCACAGTA
TAAGGAACAGCTGGTGAAGATGTTTGGCTCCAGCATGGATCTGATCGACCCTGGGCAG

Alignment

ORF - retro_ogar_2423 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80. %
• Parental protein coverage: 79.04 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PKTVNRRKLFCAETYNPDEEEEDTDPRVIHPKTDEQRCRLQEACKDILLFKNLDQVTLFFFLN-IFVIVI
          P...NRR...CAETYNPDEEE.DTDPRVIHPKTDEQRCR.QEACKD.LLFKNLDQ..L...L...F....
Retrocopy PNRFNRRVSVCAETYNPDEEEKDTDPRVIHPKTDEQRCRCQEACKDTLLFKNLDQEQLSQVLDAMFERIV

Parental  ETHFLILSEVINESVSYHSSRGTYDILVTKDNQTRCVGQYDNR-GSFGELALMYNTPRAATIVATSEGSV
          ................Y....GTYDILVTKDN.TRCVGQ.DNR.GSFGELALMYNTPRAA.IVAT.EGS.
Retrocopy TVDGHVIDQGDEGDNFYVIEQGTYDILVTKDNETRCVGQHDNR<GSFGELALMYNTPRAA-IVATPEGSL

Parental  WGLDRSTFRRIIVKNNAKKRKMFESFIESVPLLKSLEVSERMKIVDVIGEKIYKDGERIITQGEKADSFY
          WGLD..TFRRIIVKNNAKKRKMFESFIESVPLLKSLEVSERMKIVDV.GEKIYKDGERIITQGEK.DSFY
Retrocopy WGLDWLTFRRIIVKNNAKKRKMFESFIESVPLLKSLEVSERMKIVDVRGEKIYKDGERIITQGEKPDSFY

Parental  IIESGEVSILLKSKTKTNKDGGNLEVEIARCHKGQYFGELALVTNKPRAASAYAIGDVKCLVMDVQAFER
          IIESGEV.ILLKSK.KTNKD.GNL.VEIARC.KGQ.FGE..LVTNKPRAASAYA.GDVKCLVMDVQAFER
Retrocopy IIESGEVGILLKSKSKTNKDNGNLKVEIARCPKGQCFGEVPLVTNKPRAASAYATGDVKCLVMDVQAFER

Parental  LLGPCMDIMKRNISHYEEQLVKMFGSSMDLIDPGQ
          LLG.CMDIMKRNIS.Y.EQLVKMFGSSMDLIDPGQ
Retrocopy LLGLCMDIMKRNISQYKEQLVKMFGSSMDLIDPGQ

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_2423 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000003255	1 retrocopy	retro_cjac_1807,
Monodelphis domestica	ENSMODG00000013392	1 retrocopy	retro_mdom_97,
Oryctolagus cuniculus	ENSOCUG00000012426	1 retrocopy	retro_ocun_538,
Otolemur garnettii	ENSOGAG00000006668	1 retrocopy	retro_ogar_1897,
Otolemur garnettii	ENSOGAG00000006822	1 retrocopy	retro_ogar_2423 ,