RetrogeneDB ID: retro_ogar_2851

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873672.1:3237601..3237895(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAB22A
• Ensembl ID: ENSOGAG00000015779
• Aliases: None
• Description: RAB22A, member RAS oncogene family [Source:HGNC Symbol;Acc:9764]

Sequence

>retro_ogar_2851
ATGGCACTGAGGGAACTCAAAGTGTGTCTGCTGGGAGATATGGGTGTGGGTAAATCCAGTACTGTATGGCAGTTCATGGA
AGCCAGTTTTGATACTAACATTGAACCAACAATAGGGGCATCTTTTACGACCAAGATTGTCCAATACCAAAATGAGGTAC
ATAAATACCTAATCTGGGAAACAGCTGGACAAGAAAGATGTTGTGCCTTAGCACCAATGTACTATTGAGAGTCAGCTACA
GCTATAATCATCTGTGGTATCATAAAAAAAGAGACATTTTAAACATTAAGGAAT

Alignment

ORF - retro_ogar_2851 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.51 %
• Parental protein coverage: 50.52 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MALRELKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQERFRAL
          MALRELKVCLLGD.GVGKSS.VW.F.E.SFD.NI.PTIGASF.TK.VQYQNE.HK.LIW.TAGQER..AL
Retrocopy MALRELKVCLLGDMGVGKSSTVWQFMEASFDTNIEPTIGASFTTKIVQYQNEVHKYLIWETAGQERCCAL

Parental  APMYYRGSAAAIIVYDITKEETFSTLKN
          APMYY..SA.AII...I.K.ETF.TL.N
Retrocopy APMYY*ESATAIIICGIIKKETF*TLRN

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_2851 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 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012646	1 retrocopy	retro_amel_617,
Canis familiaris	ENSCAFG00000012101	1 retrocopy	retro_cfam_501,
Callithrix jacchus	ENSCJAG00000019039	2 retrocopies	retro_cjac_1715, retro_cjac_842,
Microcebus murinus	ENSMICG00000008382	1 retrocopy	retro_mmur_1546,
Oryctolagus cuniculus	ENSOCUG00000004414	1 retrocopy	retro_ocun_554,
Otolemur garnettii	ENSOGAG00000009456	2 retrocopies	retro_ogar_2175, retro_ogar_985,
Otolemur garnettii	ENSOGAG00000015779	1 retrocopy	retro_ogar_2851 ,