RetrogeneDB ID: retro_ogar_1944

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873576.1:10953558..10954404(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: PPP2R5C
• Ensembl ID: ENSOGAG00000006274
• Aliases: None
• Description: protein phosphatase 2, regulatory subunit B', gamma [Source:HGNC Symbol;Acc:9311]

Sequence

>retro_ogar_1944
GTGGAATATATCACCTGCGACGAGAATGTGCTCACAGAGCCTGTTTACCCAGAAGTGGGACCTATGTTTGCAGTTCACAT
CTTTCAGACATTACCACCTTCCTCCAATCCTACGGGAGCAGACTTTGACCCAGAGGAAGACCAACCAACGTTAGAAGCAG
CCGGGCCTCATCTACAGCTGGTTTATGAATTTTTCTTAAGATTTTTAGAGTCTCCAGATTTCCAACCTAAGATAGCAAAG
AAATATATTGACCAGAAGTTTGTATTGCAGCTTTTAGAGCTCTTTGACAGTGAAGATCCTCGGGAGAGAGATTTTCTTAA
TACCACCCTTCGCAGAATCTATGGGAAATTCTTAGGCTTGAGAGCTTACATCAGAAAACAGATAAATAACATATTTTATA
GGTTTATTTATGAAAAAGAGCATCACAATGGCGTAGCAGAATTACTGGAAATATTGGGACATATAATTAATGGATTTGCT
TTACCGCTAAAAGAAGAGCACAAGATTTTCTTGTTGAAGGTGTTACTACCTTTGCACAAAGTGCTATCGCCGAGTGTCTA
CCATCCCCAGCTGGCATACCATGTAGTGCAGGTTTTAAAAAAGGACAGCATCCTCACTGAACCAGTGGTGATGGCACTTC
TCAAATACTGGCCAAAGACTCACAGTCCAAAAGAAGTCATGTTCTTAAATGCATTGGAAGAGATTTTAGATGTAATCGAG
CCATCGGAATTCGTGAAGATCGTGGAACCTCTTTTCCGGCACTGAGCCAAGTGTGTCTCCAGTCCACACTTCAGCAGCAG
CCATGAGCTTCTGTCTTTCAGGTGGCAGAACGGGCACTGCATTACT

Alignment

ORF - retro_ogar_1944 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.4 %
• Parental protein coverage: 57.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VEYITHNRNVITEPIYPEVVHMFAVNMFRTLPPSSNPTGAEFDPEEDEPTLEAAWPHLQLVYEFFLRFLE
          VEYIT...NV.TEP.YPEV..MFAV..F.TLPPSSNPTGA.FDPEED.PTLEAA.PHLQLVYEFFLRFLE
Retrocopy VEYITCDENVLTEPVYPEVGPMFAVHIFQTLPPSSNPTGADFDPEEDQPTLEAAGPHLQLVYEFFLRFLE

Parental  SPDFQPNIAKKYIDQKFVLQLLELFDSEDPRERDFLKTTLHRIYGKFLGLRAYIRKQINNIFYRFIYETE
          SPDFQP.IAKKYIDQKFVLQLLELFDSEDPRERDFL.TTL.RIYGKFLGLRAYIRKQINNIFYRFIYE.E
Retrocopy SPDFQPKIAKKYIDQKFVLQLLELFDSEDPRERDFLNTTLRRIYGKFLGLRAYIRKQINNIFYRFIYEKE

Parental  HHNGIAELLEILGSIINGFALPLKEEHKIFLLKVLLPLHKVKSLSVYHPQLAYCVVQFLEKDSTLTEPVV
          HHNG.AELLEILG.IINGFALPLKEEHKIFLLKVLLPLHKV.S.SVYHPQLAY.VVQ.L.KDS.LTEPVV
Retrocopy HHNGVAELLEILGHIINGFALPLKEEHKIFLLKVLLPLHKVLSPSVYHPQLAYHVVQVLKKDSILTEPVV

Parental  MALLKYWPKTHSPKEVMFLNELEEILDVIEPSEFVKIMEPLFRQLAKCVSSPHFQVAERAL-YYWNNEYI
          MALLKYWPKTHSPKEVMFLN.LEEILDVIEPSEFVKI.EPLFR..AKCVSSPHF......L...W.N...
Retrocopy MALLKYWPKTHSPKEVMFLNALEEILDVIEPSEFVKIVEPLFRH*AKCVSSPHFSSSHELLSFRWQNGHC

Parental  MS
          ..
Retrocopy IT

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_1944 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000078304	2 retrocopies	retro_hsap_2649, retro_hsap_3796,
Gorilla gorilla	ENSGGOG00000010878	2 retrocopies	retro_ggor_1850, retro_ggor_7,
Nomascus leucogenys	ENSNLEG00000015727	2 retrocopies	retro_nleu_1125, retro_nleu_655,
Otolemur garnettii	ENSOGAG00000006274	1 retrocopy	retro_ogar_1944 ,
Pongo abelii	ENSPPYG00000006152	3 retrocopies	retro_pabe_2322, retro_pabe_2414, retro_pabe_3101,
Pan troglodytes	ENSPTRG00000006734	1 retrocopy	retro_ptro_1784,