RetrogeneDB ID: retro_ogar_3362

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873803.1:233334..234624(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000028554
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PPP2R3C
• Ensembl ID: ENSOGAG00000008489
• Aliases: None
• Description: protein phosphatase 2, regulatory subunit B'', gamma [Source:HGNC Symbol;Acc:17485]

Sequence

>retro_ogar_3362
GAACAAGAATTAAAAGATGAAGAAGTGGATTTATTTACCAAATACTATTCAGAATGGAAAGGTGGTAGAAAAAGCACAAA
TGAATTCTATAAGACCATTCCCCAGTTTTATTATAGGCTGCCAGCTGAAGATGAAGTCTTACTACAGAAATTAAGAGAGG
AATCCAGAGCTGTCTTCCTACAAAGGAAAAGCAGAGAACTATTAGATAATGAAGAATTACAGAACTTATGGTTTTTGCTG
GACAAACACCAGACACCACCTATGATTGGAGAGGAAGCAATGATCAATTATGAAAAATTTTTGAAGGTTGGTGAAAAGGC
TGGACCAAAGTGCAAGCAATTTTTCACAGCAAAAGTCTTTGCTAAACTCCTTCATGCAGATTCATATGGAAGAATTTCCA
TCATGCAATTCTTTAACTATGTTATGAGAAAAGTTTGGCTTCATCAAACAAGAATAGGACTCAGTTTATATGATGTTACT
GGGCAAGGGTACCTTCGAGAATCTGATTTAGAAAACTACATATTGGAACTTATCCCTACTTTTCCACAATTAGATGGGCT
GGAAAAATCCTTTTACTCCTTTTATGTGTGTATGGCAGTTAGAAAGTTCTTCTTCTTTTTAGACCCTCTAAGAACAGGGA
AGATAAAAATTCAAGATATTTTAGCATGCAGCTTCCTAGATGATTTATTGGAGCTAAGGGATGAAGAACTGTCCAAGGAG
AGTCAAGAAACAAATTGGTTTTCTGCTCCTTCTGCCCTAAGAGTTTATGGCCAGTATTTGAATCTTGATAAAGATCACAA
TGGCATGCTCAGTAAAGAAGAGCTCTCCTGCTATGGAACAGCAACTATGACCAATGTTTTCTTAGATGGTGTTTTCCAGG
AATGTCTCACTTACGATGGAGAAATGGACTATAAGACTTACTTGGACTTTGTTCTTGCATTAGAAAACAGAAAGGAACCT
GCAACTCTGCAATATATTTTCAAACTGCTTGATATTGAGAACAAAGGCTATCTGAATGTCTTTTCCCTTAATTATTTCTT
TAGGGCCATACAAGAACTAATGAAAATCCATGGAAAAAATCCTGTTTCATTTCAAGATGTGAAGGATGAAATATTTGACA
TGGTAAAACCAAAAGATCCTTTGAAAATTTCTCTTCAGGATTTAATCAACAGTAATCAAGGAGACACAGTCACCACCATT
CTAATTGATCTAAATGGCTTCTGGACTTACGAAAACAGGGAAGCTCTTGTTGCAAATGACAGTGAAAACTCTGGAGACCT
TGACGACACA

Alignment

ORF - retro_ogar_3362 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.21 %
• Parental protein coverage: 94.92 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EQELKDEEMDLFTKYYSEWKGGRKSTNEFYKTIPRFYYRLPAEDEVLLQKLREESRAVFLQRKSRELLDN
          EQELKDEE.DLFTKYYSEWKGGRKSTNEFYKTIP.FYYRLPAEDEVLLQKLREESRAVFLQRKSRELLDN
Retrocopy EQELKDEEVDLFTKYYSEWKGGRKSTNEFYKTIPQFYYRLPAEDEVLLQKLREESRAVFLQRKSRELLDN

Parental  EELQNLWFLLDKHQTPPMIGEEAMINYENFLKVGEKAGPKCKQFFTAKVFAKLLHTDSYGRISIMQFFNY
          EELQNLWFLLDKHQTPPMIGEEAMINYE.FLKVGEKAGPKCKQFFTAKVFAKLLH.DSYGRISIMQFFNY
Retrocopy EELQNLWFLLDKHQTPPMIGEEAMINYEKFLKVGEKAGPKCKQFFTAKVFAKLLHADSYGRISIMQFFNY

Parental  VMRKVWLHQTRIGLSLYDVAGQGYLRESDLENYILELIPTLPQLDGLEKSFYSFYVCTAVRKFFFFLDPL
          VMRKVWLHQTRIGLSLYDV.GQGYLRESDLENYILELIPT.PQLDGLEKSFYSFYVC.AVRKFFFFLDPL
Retrocopy VMRKVWLHQTRIGLSLYDVTGQGYLRESDLENYILELIPTFPQLDGLEKSFYSFYVCMAVRKFFFFLDPL

Parental  RTGKIKIQDILACSFLDDLLELRDEELSKESQETNWFSAPSALRVYGQYLNLDKDHNGMLSKEELSRYGT
          RTGKIKIQDILACSFLDDLLELRDEELSKESQETNWFSAPSALRVYGQYLNLDKDHNGMLSKEELS.YGT
Retrocopy RTGKIKIQDILACSFLDDLLELRDEELSKESQETNWFSAPSALRVYGQYLNLDKDHNGMLSKEELSCYGT

Parental  ATMTNVFLDRVFQECLTYDGEMDYKTYLDFVLALENRKEPAALQYIFKLLDIENKGYLNVFSLNYFFRAI
          ATMTNVFLD.VFQECLTYDGEMDYKTYLDFVLALENRKEPA.LQYIFKLLDIENKGYLNVFSLNYFFRAI
Retrocopy ATMTNVFLDGVFQECLTYDGEMDYKTYLDFVLALENRKEPATLQYIFKLLDIENKGYLNVFSLNYFFRAI

Parental  QELMKIHGQDPVSFQDVKDEIFDMVKPKDPLKISLQDLINSNQGDTVTTILIDLNGFWTYENREALVAND
          QELMKIHG..PVSFQDVKDEIFDMVKPKDPLKISLQDLINSNQGDTVTTILIDLNGFWTYENREALVAND
Retrocopy QELMKIHGKNPVSFQDVKDEIFDMVKPKDPLKISLQDLINSNQGDTVTTILIDLNGFWTYENREALVAND

Parental  SENSGDLDDT
          SENSGDLDDT
Retrocopy SENSGDLDDT

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_3362 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000004781	1 retrocopy	retro_cpor_1017,
Oryctolagus cuniculus	ENSOCUG00000005768	1 retrocopy	retro_ocun_1770,
Otolemur garnettii	ENSOGAG00000008489	1 retrocopy	retro_ogar_3362 ,