RetrogeneDB ID: retro_ogar_2373

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873617.1:3694014..3694470(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000026028
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000025331
• Aliases: None
• Description: None

Sequence

>retro_ogar_2373
ATGGCCAACCTCGAGCGCACCTTCATTGCCATCAAGCCGGACGGCGTGCAACGTGGCCTGGTGGGCGAGATCATCAAGCG
CTTCGAACAGAAGGGATTCCATCTCGTGGCCATGAAGTTCCTTCGGGCCTCTGAGGAACACCTGAAGCAGCACTATGCTG
ACCTGAAAGACCGCCCATTCTTCCCTGGACTGGTGAAGTACATGAACTCAGGCCCTGTTGTGGCCATGGTCTGGGAGGGG
CTGAATGTGGTGAAGACAGGCCGAGTGATGCTTGGGGAGACCAATCCAGCGGATTCTAAGCCAGGCACCATTCGTGGGGA
CTTCTGCATTCAAGTTGGCAGGAACATCATTCATGGCAGCGACTCAGTAAAAAGTGCTGAAAAAGAAATCAGCCTGTGGT
TTAAGCCTGAAGAATTGGTCGACTACAAGTCCTGTGCTTATGACTGGGTCTATGAG

Alignment

ORF - retro_ogar_2373 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.03 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MANLERTFIAIKPDGVQRGLVGEIIKRFEQKGFHLVAMKFLRVTREHLKQHYADLKDRPFFPGLVKYMNS
          MANLERTFIAIKPDGVQRGLVGEIIKRFEQKGFHLVAMKFLR...EHLKQHYADLKDRPFFPGLVKYMNS
Retrocopy MANLERTFIAIKPDGVQRGLVGEIIKRFEQKGFHLVAMKFLRASEEHLKQHYADLKDRPFFPGLVKYMNS

Parental  GPVVAMVWEGLNVVKTGRVMLGETNPADSKPGTIRGDFCIQVGRNIIHGSDSVKSAEKEISLWFKPEELV
          GPVVAMVWEGLNVVKTGRVMLGETNPADSKPGTIRGDFCIQVGRNIIHGSDSVKSAEKEISLWFKPEELV
Retrocopy GPVVAMVWEGLNVVKTGRVMLGETNPADSKPGTIRGDFCIQVGRNIIHGSDSVKSAEKEISLWFKPEELV

Parental  DYKSCAYDWVYE
          DYKSCAYDWVYE
Retrocopy DYKSCAYDWVYE

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_2373 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 11 parental genes, and 38 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008022	3 retrocopies	retro_amel_1573, retro_amel_390, retro_amel_538,
Erinaceus europaeus	ENSEEUG00000003783	2 retrocopies	retro_eeur_156, retro_eeur_5,
Homo sapiens	ENSG00000011052	1 retrocopy	retro_hsap_1063,
Myotis lucifugus	ENSMLUG00000016929	3 retrocopies	retro_mluc_1422, retro_mluc_1882, retro_mluc_637,
Mus musculus	ENSMUSG00000020857	1 retrocopy	retro_mmus_221,
Otolemur garnettii	ENSOGAG00000025331	9 retrocopies	retro_ogar_1326, retro_ogar_1875, retro_ogar_1997, retro_ogar_2373 , retro_ogar_2393, retro_ogar_2779, retro_ogar_3299, retro_ogar_483, retro_ogar_95,
Otolemur garnettii	ENSOGAG00000025808	1 retrocopy	retro_ogar_2689,
Rattus norvegicus	ENSRNOG00000002671	8 retrocopies	retro_rnor_1129, retro_rnor_1610, retro_rnor_1708, retro_rnor_1784, retro_rnor_1966, retro_rnor_2646, retro_rnor_2951, retro_rnor_628,
Sarcophilus harrisii	ENSSHAG00000014470	3 retrocopies	retro_shar_130, retro_shar_554, retro_shar_781,
Sus scrofa	ENSSSCG00000017591	1 retrocopy	retro_sscr_854,
Tupaia belangeri	ENSTBEG00000013053	6 retrocopies	retro_tbel_1271, retro_tbel_1386, retro_tbel_2497, retro_tbel_294, retro_tbel_4620, retro_tbel_820,