RetrogeneDB ID: retro_ogar_1405

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873545.1:4461343..4461594(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000026330
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: NDUFB2
• Ensembl ID: ENSOGAG00000009644
• Aliases: None
• Description: NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 2, 8kDa [Source:HGNC Symbol;Acc:7697]

Sequence

>retro_ogar_1405
AGGACACCGGCGGCTGGAGGAGGTGGAGTCCACCATGCTGGAGGTGGTGTGCATATGGAGCCCCAGTATAGACAGTTTCC
TCAGCTGGCCAGGTACCAGGTGGTCCTGGGTGAGATCTTCAGCGCAACCACGTGGTTCTGGATTCTCTGGCGCTTTCAGC
ATGACTCAGATGCTGTGTTGGGTCACTTTCCACATCCAGATCCTTCCCGGGGACAGATGAAGAATTAGGTATCCTTCCTG
ATGATGAAGAC

Alignment

ORF - retro_ogar_1405 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.53 %
• Parental protein coverage: 80. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RAPAAGGGGVRHAGGGVHIEPRYRQFPQLTRYQVVLGEVFSAGMWFWILWHFWHDSDAVLGHFPYPDPSK
          R.PAAGGGGV.HAGGGVH.EP.YRQFPQL.RYQVVLGE.FSA..WFWILW.F.HDSDAVLGHFP.PDPS.
Retrocopy RTPAAGGGGVHHAGGGVHMEPQYRQFPQLARYQVVLGEIFSATTWFWILWRFQHDSDAVLGHFPHPDPSR

Parental  -WTDEELGILPDDED
          ..TDEELGILPDDED
Retrocopy <GTDEELGILPDDED

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_1405 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 12 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000011176	1 retrocopy	retro_acar_138,
Canis familiaris	ENSCAFG00000003930	3 retrocopies	retro_cfam_1673, retro_cfam_2184, retro_cfam_958,
Equus caballus	ENSECAG00000000877	1 retrocopy	retro_ecab_587,
Mustela putorius furo	ENSMPUG00000003423	3 retrocopies	retro_mputfur_132, retro_mputfur_1443, retro_mputfur_207,
Mus musculus	ENSMUSG00000002416	1 retrocopy	retro_mmus_1881,
Otolemur garnettii	ENSOGAG00000009644	1 retrocopy	retro_ogar_1405 ,
Ochotona princeps	ENSOPRG00000013184	2 retrocopies	retro_opri_1201, retro_opri_143,
Rattus norvegicus	ENSRNOG00000026616	2 retrocopies	retro_rnor_1153, retro_rnor_2449,
Sarcophilus harrisii	ENSSHAG00000015924	1 retrocopy	retro_shar_639,
Sus scrofa	ENSSSCG00000016495	1 retrocopy	retro_sscr_1149,
Ictidomys tridecemlineatus	ENSSTOG00000002566	1 retrocopy	retro_itri_1100,
Tursiops truncatus	ENSTTRG00000000547	2 retrocopies	retro_ttru_1567, retro_ttru_1910,