RetrogeneDB ID: retro_ogar_2356

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873614.1:4333679..4333996(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAB8A
• Ensembl ID: ENSOGAG00000013894
• Aliases: None
• Description: RAB8A, member RAS oncogene family [Source:HGNC Symbol;Acc:7007]

Sequence

>retro_ogar_2356
AAAGGTCCGGACGGCGCCAGGCACTGGACTGGGATCACTGGCGAGCGGGCCTCCACAGAGGTGGGAAACACCATAGTCGG
GGTAAGTGTGTTGTGAATGGCAGCAGACAAATCTCCCAGGAAAGGGAGAAAAGCTGGCCCTCGACTACGGAATCAAGTTC
TCGGAGGCCAGCGCAAAGGCCAGCACCAGGTGGGGAACACATTTGTCACTCTCACTAGAGACGACGAAACAAAAATGGAG
AAGAAATGGGAAGGCAGCAGCCCCAGGGGAGTCGCCAGGGCTTCGAACCACAGCAGCGCAGGGAGAGGAGCAGCTCT

Alignment

ORF - retro_ogar_2356 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.25 %
• Parental protein coverage: 51.69 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  KSFDNIRNWIRNIEEHASADVEKMILG-NKCDVNDRRQVSKER-GEKLALDYGIKFMETSAKANI-NVEN
          K..D..R.W.....E.AS..V...I.G..KC.VN..RQ.S.ER.GEKLALDYGIKF.E.SAKA....V.N
Retrocopy KGPDGARHWTGITGERASTEVGNTIVG<GKCVVNGSRQISQER<GEKLALDYGIKFSEASAKAST<QVGN

Parental  AFFTLARDIKAKMDKKLEGNS-PQGSNQGVKITPDQQKRSS
          .F.TL.RD...KM.KK.EG.S.PQGS.QG..........SS
Retrocopy TFVTLTRDDETKMEKKWEGSS<PQGSRQGFEPQQRRERSSS

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_2356 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000014120	1 retrocopy	retro_cjac_1494,
Otolemur garnettii	ENSOGAG00000010405	1 retrocopy	retro_ogar_2033,
Otolemur garnettii	ENSOGAG00000013894	1 retrocopy	retro_ogar_2356 ,
Otolemur garnettii	ENSOGAG00000016969	1 retrocopy	retro_ogar_2441,
Pteropus vampyrus	ENSPVAG00000009756	1 retrocopy	retro_pvam_1354,