RetrogeneDB ID: retro_ogar_2338

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873613.1:1201297..1201657(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000013477
• Aliases: None
• Description: None

Sequence

>retro_ogar_2338
ATGCCGCTGGTCCGCTACAGGAAGGTGGTCATCCTTGGATACCGCTCAGTAGGGAAGACATCTTTGGCACATCGGTTTGT
GGAAGGCAAGTTCTTGGAAGGCTAGGACCCCACAGTGGAGAATACTTACAGCAAGATAGTGACTCTTGGCAAAGATGAGT
TTCACCTACACCTGGTGGACACAGCAGGGCAGGACGAGTACAGCATTCTGCCCTATTCATTGATCAGTCGGGTCCATGGT
TATGTGCTTGTGTATTCTGTCACCTCTCTGCATAGCTTCCAGGTCACTGAGAGTCTGTACCAAAAGCTCTACGAAGGCCA
CGGCAAAACCCGGCTGCCAGTGGTGCTAGTGGGACAGAGG

Alignment

ORF - retro_ogar_2338 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.33 %
• Parental protein coverage: 65.57 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPLVRYRKVVILGYRSVGKTSLAHQFVEGKFLEGYDPTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSIL
          MPLVRYRKVVILGYRSVGKTSLAH.FVEGKFLEG.DPTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSIL
Retrocopy MPLVRYRKVVILGYRSVGKTSLAHRFVEGKFLEG*DPTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSIL

Parental  PYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLYEGHGKTRLPVVLVGNK
          PYS.I..VHGYVLVYSVTSLHSFQV.ESLYQKLYEGHGKTRLPVVLVG..
Retrocopy PYSLISRVHGYVLVYSVTSLHSFQVTESLYQKLYEGHGKTRLPVVLVGQR

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_2338 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000002998	1 retrocopy	retro_cpor_1328,
Erinaceus europaeus	ENSEEUG00000008514	2 retrocopies	retro_eeur_338, retro_eeur_528,
Oryctolagus cuniculus	ENSOCUG00000016881	1 retrocopy	retro_ocun_1802,
Otolemur garnettii	ENSOGAG00000013477	1 retrocopy	retro_ogar_2338 ,
Pan troglodytes	ENSPTRG00000004897	1 retrocopy	retro_ptro_115,
Rattus norvegicus	ENSRNOG00000021571	1 retrocopy	retro_rnor_2059,