RetrogeneDB ID: retro_ogar_1178

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873538.1:2103985..2104339(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000031664
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000006935
• Aliases: None
• Description: None

Sequence

>retro_ogar_1178
CTCAGAGTATGGGGCGGGGTGGCCCCTGACACCAAGAGCTTTGTGCTGAACTTGGGCAAAGACAGCAACGACCCCCCTGC
ATTTCAACCCCCCTCTTCGATGTCCACAGGGACGCCAACACTCTTGTGTGCATTAGCAAAGATGGCTGGGCCTGGGGGTG
CCGGGCAGCAGGAGTCTGCCTTTCCCTTCCAGCCTGGAAGTGTCATGGAGGTGCACATCAGCTTCGACCAGGCAGACCCG
ACCATCAAGCTGCCAGACGGTTACATGTTCAAGTTCCCCAACGGCCTCAACCTGGAGGCAATCAACTACGTGGCAGCTGA
TAGTGACTTCAAGGTCAAGTGTGTGGCTTTTGAT

Alignment

ORF - retro_ogar_1178 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.1 %
• Parental protein coverage: 87.41 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LRVRGEVAPDAKSFVLNLGKDSNNLCLHFNPRFDAHGDANTIVCNSKDGGAWGAEQREAAFPFQPGSVVE
          LRV.G.VAPD.KSFVLNLGKDSN.......P.....G.........K..G..GA.Q.E.AFPFQPGSV.E
Retrocopy LRVWGGVAPDTKSFVLNLGKDSNDPPAFQPPSSMSTGTPTLLCALAKMAGPGGAGQQESAFPFQPGSVME

Parental  VCISFDQADLTVKLPDGYTFKFPNRLNLEAINYMAADGDFKIKCVAFD
          V.ISFDQAD.T.KLPDGY.FKFPN.LNLEAINY.AAD.DFK.KCVAFD
Retrocopy VHISFDQADPTIKLPDGYMFKFPNGLNLEAINYVAADSDFKVKCVAFD

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_1178 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 3 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000001487	1 retrocopy	retro_cfam_141,
Otolemur garnettii	ENSOGAG00000006935	5 retrocopies	retro_ogar_11, retro_ogar_1178 , retro_ogar_2084, retro_ogar_467, retro_ogar_64,
Tursiops truncatus	ENSTTRG00000004798	1 retrocopy	retro_ttru_1501,