RetrogeneDB ID: retro_ogar_2163

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873598.1:909222..910212(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000008469
• Aliases: None
• Description: None

Sequence

>retro_ogar_2163
TCAGTCGATGAGATAGCAAGACAATTGGAAAAACAAACATTAGAAGAGAAAGAAGGAGATGATGATAATGAAGATGGAGA
TGGGGATGGAGCAACTGGAAAGAAGAAGAAAAAGAAGAAGAAGAAAAGAGGATCAAAAGTTTAAACAGACCCGCTCTCAG
TTCCAATATGTCACCTGTATCCTAATGGTGTATTTCCCAAAGGACAAGAGTGTGAATACCCACCCACACAAGATGGGCGA
ACAGCTGCTTGGAGAACTACAAGTGATGAAAAGAAAGCCTTAGATCAGGCCAGTGAAGAGATTTAGAATGATTTTCGAGA
AGCTGCAGAAGCACATCGACAAGTTAGAAAATATGTTATGAGCTGGATCAAGCCTGAGATGGCAATGATAGAATCTGTGA
AAAGTTAGAAGATTGTTCACGCAATCCATAAAAGAGAATGGATTAAATGCAGGCCTGGCATTTCCTACTGGGTGTTCTTT
CAATAATTGTGCTGCCCATTATAGTCCCAATGCTGGTGATACCACAGTATTACAATATGATGACATCTGAAAGATAGATT
TGGGAACACACGTAAGTGGTAGTAGATTATTGACTGTGCTTTTACTGTCACTTTTAATTCCAAATATAACGTGTTATTAA
AAGCTGTAAAGGATGCTACTGCTACTGGGAAAAAGTGTGCTGGAATTGATGTTCATCTATGTGATGTTGGGGAGGCCATT
CAAGAAGTTATAGAATCCTATGAAGTTGAAATAGATGGGAAGACATATCAAGTGAAACCAATCCATAATCTAAATGGACA
TTCAATTGGGCAATATAGAATATGTGCTGGGAAAACAGTGCCCATTGTGAAAAGAGGTGAGGCAACAAGAATGGAGGAAG
GAGAAGTGTATGCAATTGAAACCTTTGGTAGTGCAGGAAAAGGTGTTGTTCATGATGACATGGAATGTTCACATTACATG
AAAAATTTTGATGTTGGACATGTGCTGATA

Alignment

ORF - retro_ogar_2163 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.08 %
• Parental protein coverage: 68.74 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TVASLLKEIAIQHVWRKNEYKEDGDGDGDGATGKKKKKKKKKRGSKVQTDPPSVPICDLYPNGVFPKGQE
          .V.........Q....K.......DGDGDGAT...........GSKV.TDP.SVPIC.LYPNGVFPKGQE
Retrocopy SVDEIARQLEKQTLEEKEGDDDNEDGDGDGATXXXXXXXXXXXGSKV*TDPLSVPICHLYPNGVFPKGQE

Parental  CEYPPTQDGRTAAWRTTSEEKKALDQASEEIWNDFREAAEAHRQVRKYVMSWIKPGMTMIE-ICEKLEDC
          CEYPPTQDGRTAAWRTTS.EKKALDQASEEI.NDFREAAEAHRQVRKYVMSWIKP.M.MIE.ICEKLEDC
Retrocopy CEYPPTQDGRTAAWRTTSDEKKALDQASEEI*NDFREAAEAHRQVRKYVMSWIKPEMAMIE<ICEKLEDC

Parental  SR-KLIKENGLNAGLAFPTGCSLNNCAAHYTPNAGDTTVLQYDDICKIDFGTHISG-RII-DCAFTVTFN
          SR...IKENGLNAGLAFPTGCS.NNCAAHY.PNAGDTTVLQYDDI.KID.GTH.SG.R...DCAFTVTFN
Retrocopy SR<QSIKENGLNAGLAFPTGCSFNNCAAHYSPNAGDTTVLQYDDI*KIDLGTHVSGSRLL<DCAFTVTFN

Parental  PKYDTLLKAVKDATNTGIKDINVDLVCGVSLPDLGETV--ILSYFKINLVYKKKTVKPIRNLNGHSIGQY
          .KY..LLKAVKDAT.TG.K....D....V.L.D.GE...............K...VKPI.NLNGHSIGQY
Retrocopy SKYNVLLKAVKDATATGKKCAGID----VHLCDVGEAIQEVIESYEVEIDGKTYQVKPIHNLNGHSIGQY

Parental  RIHAGKTVPIVKGGEATRMEEGEVYAIETFGSTGKGVVHDDMECSHYMKNFDVGHVPI
          RI.AGKTVPIVK.GEATRMEEGEVYAIETFGS.GKGVVHDDMECSHYMKNFDVGHV.I
Retrocopy RICAGKTVPIVKRGEATRMEEGEVYAIETFGSAGKGVVHDDMECSHYMKNFDVGHVLI

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_2163 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000006353	1 retrocopy	retro_cfam_1330,
Monodelphis domestica	ENSMODG00000008173	1 retrocopy	retro_mdom_297,
Mus musculus	ENSMUSG00000036112	2 retrocopies	retro_mmus_3689, retro_mmus_770,
Otolemur garnettii	ENSOGAG00000008469	1 retrocopy	retro_ogar_2163 ,
Rattus norvegicus	ENSRNOG00000021881	2 retrocopies	retro_rnor_1707, retro_rnor_547,