RetrogeneDB ID: retro_ogar_170

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL874255.1:2572..3163(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000032724
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000004883
• Aliases: None
• Description: None

Sequence

>retro_ogar_170
ATGGACGATACCCTGTTCCAGTTGAAGTTCACAGCAAAACAACTGGAGAAACTAGCGAAGAAGGCAGAGAAGGACTCCAA
GGCCGAGCAGGCCAAAGTGCAGAAGGCCCTTCAGCAAAAGAATGTGGAGTGTGCCCGTGTATATGCCGAGAATGCCATCC
GCAAGAAGAATGAGGGTGTGAACTGGCTGTGCATGGCATCCCGTGTGGACGCAGTGGCCTCCAAGGTGCAGACGGCTGTG
ACCATGAAAGGGGTGACCAAGAACATGGCACAAGTGACCAAAGCCCTAGACAAGGCCCTGAGCACCATGAACCTGCAGAA
GCTGTCTGCAGTGATGGACAGATTTGAGCAGCAGGTGCAGAACCTGGATGTACACACATCGGTGATGGAAGACTCCATGA
GCTCGGCCACCACACTCACTACGCCTCAGAAGCAAGTGGATAGCCTTATTGTGCAGATTGCCGAGGAGAATGGCCTAGAG
GTACTAGACCAGCTCAGCCAGCTGCCCGAGGGCGCCTCTGCTGTGGGCGAGAGCTCTGTGCGTAGCCAGGAGGACCAGCT
GTCTCGGAGGTTGGCTGCCTTGAGGAATTAG

Alignment

ORF - retro_ogar_170 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.83 %
• Parental protein coverage: 96.97 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IFNLEFTAKQLEKLAKKAEKDSKAEQAKVKKALQQKNVECARVYAENAIRKKNEGVNWLRMASRVDAVAS
          .F.L.FTAKQLEKLAKKAEKDSKAEQAKV.KALQQKNVECARVYAENAIRKKNEGVNWL.MASRVDAVAS
Retrocopy LFQLKFTAKQLEKLAKKAEKDSKAEQAKVQKALQQKNVECARVYAENAIRKKNEGVNWLCMASRVDAVAS

Parental  KVQTAVTMKGVTKNMAQVTKALDKALSTMDLQKVSAVMDRFEQQVQNLDVHTSVMEDSMSSATTLTTPQE
          KVQTAVTMKGVTKNMAQVTKALDKALSTM.LQK.SAVMDRFEQQVQNLDVHTSVMEDSMSSATTLTTPQ.
Retrocopy KVQTAVTMKGVTKNMAQVTKALDKALSTMNLQKLSAVMDRFEQQVQNLDVHTSVMEDSMSSATTLTTPQK

Parental  QVDSLIVQIAEENGLEVLDQLSQLPEGASAVGESSVRSQEDQLSRRLAALRN
          QVDSLIVQIAEENGLEVLDQLSQLPEGASAVGESSVRSQEDQLSRRLAALRN
Retrocopy QVDSLIVQIAEENGLEVLDQLSQLPEGASAVGESSVRSQEDQLSRRLAALRN

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_170 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 13 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000001216	1 retrocopy	retro_amel_1749,
Bos taurus	ENSBTAG00000033331	1 retrocopy	retro_btau_1048,
Canis familiaris	ENSCAFG00000019822	1 retrocopy	retro_cfam_1866,
Callithrix jacchus	ENSCJAG00000010826	1 retrocopy	retro_cjac_1147,
Homo sapiens	ENSG00000131165	2 retrocopies	retro_hsap_359, retro_hsap_75,
Macaca mulatta	ENSMMUG00000014909	3 retrocopies	retro_mmul_1325, retro_mmul_476, retro_mmul_706,
Mustela putorius furo	ENSMPUG00000007281	1 retrocopy	retro_mputfur_383,
Mus musculus	ENSMUSG00000000743	1 retrocopy	retro_mmus_2260,
Oryctolagus cuniculus	ENSOCUG00000023371	1 retrocopy	retro_ocun_1508,
Otolemur garnettii	ENSOGAG00000004883	1 retrocopy	retro_ogar_170 ,
Pongo abelii	ENSPPYG00000007667	1 retrocopy	retro_pabe_344,
Pan troglodytes	ENSPTRG00000008483	2 retrocopies	retro_ptro_1278, retro_ptro_283,
Ictidomys tridecemlineatus	ENSSTOG00000023813	1 retrocopy	retro_itri_1311,