RetrogeneDB ID: retro_ogar_1163

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873537.1:18905083..18905837(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000026364
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MPPE1
• Ensembl ID: ENSOGAG00000007068
• Aliases: None
• Description: metallophosphoesterase 1 [Source:HGNC Symbol;Acc:15988]

Sequence

>retro_ogar_1163
ATGGGGTTTGGAAGATAAAATTTTCATCTATTAAAGAGGAGGGGTTCATTGCTATTGAAACTCATAGCAATTGTTGTTGT
CTTTGCTGTGCTTCTGTTTTGTGAATTTTCAGTCTATTACTTAGTGATCTTTCAGTGTGATTGGCCTGGGGTGAAAACTC
CAGCCTATGACAGCAAACCAGTGACTCTTAAGCCTGTGCTGAAAGCCATGTTTTTGGCGGATACCCACTTGCTTGGGGAA
GTCACAGACCCCTGGCTAGACAAACTGTGAAGGGAATGGCAGATGGAGAGAGCCTCCAGACGGCTCTGTGGTTGCTGCAG
CCAGAAGTCATCTTCATTCTGGGGGATGTATTTGATGAAGGGAAGTGGAGCTCCCCCAAGGCCTGCGCAGATGATGTAGA
GCAGTTTCAGAAAATGTTCAGACACCTAAGTCACGTGCAGCTGAAGGTAGTTGCTGGCAACCATGAGATTGGCTTCCATT
ATAAGATGACCACATACAAAATAAAACGGTTTGAGAAAGTTTTCAGCTCTGAAAGGCTGTTTTCCTGGAAAGGAATTAAT
TTCGTGATGGTCAGCAGCATGGCACTGGAAGGGGACCATTGCACCCTCTGTTCCAAAGCAGAAGCAAAGCTCATTGCAAC
TGAACTGCTCCTGGGAGCAGCACCCTGCTTCCCGCCAGTGTGGAGAGAGGCAGCCGCTCCTGCCTGGGCACCTGTCCTCC
TGCAGCATTACCCGCTTTACCACAGAAGAGACGA

Alignment

ORF - retro_ogar_1163 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.41 %
• Parental protein coverage: 63.22 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LGFGRRNFRPLKRRSSLLLKLIAVVL--AVLLFCEFLVYYLVIFWCDWPAVTTPAHGSKPATLVPVLKVM
          .GFGR.NF..LKRR.SLLLKLIA.V...AVLLFCEF.VYYLVIF.CDWP.V.TPA..SKP.TL.PVLK.M
Retrocopy MGFGR*NFHLLKRRGSLLLKLIAIVVVFAVLLFCEFSVYYLVIFQCDWPGVKTPAYDSKPVTLKPVLKAM

Parental  FLADTHLLGEVRGHWLDKLRREWQMERA-FQTALWLLQPEVVFILGDIFDEGKWSSPKAWADDVERFQKM
          FLADTHLLGEV...WLDKL.REWQMERA..QTALWLLQPEV.FILGD.FDEGKWSSPKA.ADDVE.FQKM
Retrocopy FLADTHLLGEVTDPWLDKL*REWQMERA<LQTALWLLQPEVIFILGDVFDEGKWSSPKACADDVEQFQKM

Parental  FRHPATKKKKVAGSNPQPGPFEFRMTTYKIKRFEKVFSSERLFSWKGINFVMINSVALEGDRCTLCSKAE
          FRH......KV...N...G.F...MTTYKIKRFEKVFSSERLFSWKGINFVM..S.ALEGD.CTLCSKAE
Retrocopy FRHLSHVQLKVVAGNHEIG-FHYKMTTYKIKRFEKVFSSERLFSWKGINFVMVSSMALEGDHCTLCSKAE

Parental  AELIAISHRLNCSREDP-ASHQCGEGQPLPVSAPVLLQHYPLYRR
          A.LIA....L......P.AS...G....L....P..L...P..RR
Retrocopy AKLIATELLLGAAPCFP<ASVERGSRSCLGTCPPAALPALPQKRR

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_1163 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000154889	1 retrocopy	retro_hsap_1450,
Macaca mulatta	ENSMMUG00000011467	1 retrocopy	retro_mmul_2270,
Mus musculus	ENSMUSG00000062526	1 retrocopy	retro_mmus_869,
Otolemur garnettii	ENSOGAG00000007068	2 retrocopies	retro_ogar_1163 , retro_ogar_2826,
Pongo abelii	ENSPPYG00000008997	1 retrocopy	retro_pabe_3557,
Pan troglodytes	ENSPTRG00000009872	1 retrocopy	retro_ptro_986,