RetrogeneDB ID: retro_ogar_1615

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873556.1:8046239..8046897(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000008547
• Aliases: None
• Description: None

Sequence

>retro_ogar_1615
ACTGGGGTGCTCCTGCTGGCTACTGGTGTCTGGGGCAAGCTTACTCTGGGTACCTAAATCTCTCTTATTGCCGAGAACTC
CACAAATGCTCCCTATGTGCTCACAGGAACTGGCACCACTACTGTTGTCCTTTTCCTATTTGGATTCTTTGCTAGGGACC
ATGGTAGCCCCTCGATGCTGAAGCTGGATGTTGTGTTTCTGTCCCTGGTGTTCCTCGCTGAGTTTTTAGCTGGCATTTCA
GGGTTTGTGTTTCGTCATGAGATCAAGAACACCTTCCTGAGGACTTACACAGATGCCATGCAGAATTACAACGGCGATGA
TGAGAGGAGCCGGGCAGCAGATCGTGTGCAGCGCAGCCTGAGCTGCTGTGGCTGCAAAACTACACCAACTGGACACCAGC
CCCTGCTTCCTGGAGCACGGCATCCCCCAGGTGCTGCACGGATGACACAGACTATAATCCCCAGGATCTGCACAATCTGA
CTACTGCCGCCACCAAAGTTAACCAGAAGCATTGTTATGGTCTGGTGACCAGTTTCATGGAGACTACCGTGGGAATCATC
GCTGGAGTGGCATTTGGAATAGCATTTTCCCAGCTGATTGGCATGCTGCTGGCCTGCTGTCTTCCTGGTTCATCACAGCC
AGTCAGTATGAGACGGTG

Alignment

ORF - retro_ogar_1615 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.48 %
• Parental protein coverage: 90.57 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TGVILLAVGVWGKLTLGTYISLIAENSTNAPYVLIGTGTTIVVFGLFGCFATCRGSPWMLKLYAMFLSLV
          TGV.LLA.GVWGKLTLGT.ISLIAENSTNAPYVL.GTGTT.VV..LFG.FA...GSP.MLKL...FLSLV
Retrocopy TGVLLLATGVWGKLTLGT*ISLIAENSTNAPYVLTGTGTTTVVLFLFGFFARDHGSPSMLKLDVVFLSLV

Parental  FLAELVAGISGFVFRHEIKDTFLRTYTDAMQTYNGHDERSRAVDHVQRSLSCCG-VQNYTNWSTSPYFQE
          FLAE..AGISGFVFRHEIK.TFLRTYTDAMQ.YNG.DERSRA.D.VQRSLSCCG..QNYTNW...P....
Retrocopy FLAEFLAGISGFVFRHEIKNTFLRTYTDAMQNYNGDDERSRAADRVQRSLSCCG<LQNYTNWTPAPASWS

Parental  NGIPPSCCMNETDCNPQDLHNLTTAATKVNQKGCYDLVTSFMETNMGIIAGVAFGIAFSQLIGMLLACCL
          ....P.CC...TD.NPQDLHNLTTAATKVNQK.CY.LVTSFMET..GIIAGVAFGIAFSQLIGMLLACCL
Retrocopy TA-SPRCCTDDTDYNPQDLHNLTTAATKVNQKHCYGLVTSFMETTVGIIAGVAFGIAFSQLIGMLLACCL

Parental  -SRFITANQYEMV
          .S.FITA.QYE.V
Retrocopy <SWFITASQYETV

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_1615 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000000183	1 retrocopy	retro_cpor_716,
Dipodomys ordii	ENSDORG00000012580	1 retrocopy	retro_dord_708,
Macropus eugenii	ENSMEUG00000002809	1 retrocopy	retro_meug_1563,
Mus musculus	ENSMUSG00000058254	1 retrocopy	retro_mmus_157,
Otolemur garnettii	ENSOGAG00000004869	1 retrocopy	retro_ogar_2827,
Otolemur garnettii	ENSOGAG00000008547	2 retrocopies	retro_ogar_1615 , retro_ogar_3124,
Otolemur garnettii	ENSOGAG00000016713	2 retrocopies	retro_ogar_2407, retro_ogar_469,
Rattus norvegicus	ENSRNOG00000003229	1 retrocopy	retro_rnor_131,