RetrogeneDB ID: retro_ogar_2283

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873609.1:3136958..3137451(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DPM1
• Ensembl ID: ENSOGAG00000005384
• Aliases: None
• Description: dolichyl-phosphate mannosyltransferase polypeptide 1, catalytic subunit [Source:HGNC Symbol;Acc:3005]

Sequence

>retro_ogar_2283
AGAGTGGGGGCAGGGACTGCACATATTCGTGGAATGAAACATGCTATGGGAAACTACATAATTAGTATGGATGCTGATGT
CTCACACCACCCAAAATTTATTTCTGAATTCATTATGAAGCAAAAGGAGGGTAACTTTGATATTGTCTCTGGAACTCGCT
GCAAAGGAAGTGGATGTATATATGGGTGGGATTTGAAAAGAAAAATAATCAGCCCTGGGGCCAATTTTATAACAGATTTT
GCTGATACCAGGAGCATCTGATTCAACAGTTAGTTTCAGATTATATCTCAAAGAAGTTCTACAGAACTTAATAGAAAAAT
GTGTTTCTAAAGGCTACGTCTTCCAGATGGAGATGATTGTTTGGGTAAGACAATTGAATTATATTATTGGTGAGGTTCCA
ATATCATTTGTGGATTAAGTTTATGGTGAATTCAAGTTGGGAGGAAAAGAGATAGTCTCTTTCTTGAAAGGATTATTGAC
TCTGTTTGCTACT

Alignment

ORF - retro_ogar_2283 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.53 %
• Parental protein coverage: 63.46 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KLGLGTAYIHGMKHATGNYIIIMDADLSHHPKFIPEFIRKQKEGNFDIVSGTRYKGSGGVYGWDLKRKII
          ..G.GTA.I.GMKHA.GNYII.MDAD.SHHPKFI.EFI.KQKEGNFDIVSGTR.KGSG..YGWDLKRKII
Retrocopy RVGAGTAHIRGMKHAMGNYIISMDADVSHHPKFISEFIMKQKEGNFDIVSGTRCKGSGCIYGWDLKRKII

Parental  SRGANFITQ-ILLRPGASDLTGSFRLYRKEVLQKLIEKCVSKGYVFQMEMIVRARQLNYTIGEVPISFVD
          S.GANFIT...L..PGASD.T.SFRLY.KEVLQ.LIEKCVSKGYVFQMEMIV..RQLNY.IGEVPISFVD
Retrocopy SPGANFITD>LLI-PGASDSTVSFRLYLKEVLQNLIEKCVSKGYVFQMEMIVWVRQLNYIIGEVPISFVD

Parental  RVYGESKLGGNEIVSFLKGLLTLFAT
          .VYGE.KLGG.EIVSFLKGLLTLFAT
Retrocopy *VYGEFKLGGKEIVSFLKGLLTLFAT

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_2283 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 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000005384	2 retrocopies	retro_ogar_1252, retro_ogar_2283 ,