RetrogeneDB ID: retro_ogar_2914

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873679.1:3921693..3922051(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000025867
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: NOL12
• Ensembl ID: ENSOGAG00000008255
• Aliases: None
• Description: nucleolar protein 12 [Source:HGNC Symbol;Acc:28585]

Sequence

>retro_ogar_2914
GGCCACAACAAGAAGGAGCAAGTTAGCGACAACCGGGGGTCCCAGCTAGTTCTCAGCTTCCACGAAGAGAAGCGGAGTGT
CTGACAGGCTTCCACAAAAGGAAGAAGGCAGCCACTGAAAAGAGATTAAACAGCAGCTGAAAGCCCAGCAGCAGCAGCTC
CAAGAGGAGCTTGGGCCAGAATACCCGAAAATGCTGGCAGAGAGAAGAGGCGCCAGAGGAGGCAGCTGAGCTGGACCAAC
TGATGATGGCCAAAACAGAGTCGGTCCAATATGACCACCCCAACCACACAGTGACTGTGACTACCATCAGTGACCTTGAC
CTCTCAGGGGCTGGCTGCTGGCACTGCCCCCGCCTGAG

Alignment

ORF - retro_ogar_2914 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.25 %
• Parental protein coverage: 57.87 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GRNKKKRVGDDRRPRLVLSFDEEKRR-EYLTGFHKRKVERKKAAIEE-IKQRLKEEQKKLREERHQEYLK
          G.NKK..V.D.R...LVLSF..E..R.E.LTGFHK....RKKAA.E.......K...........Q...K
Retrocopy GHNKKEQVSDNRGSQLVLSF-HEEKR<ECLTGFHK----RKKAATEKRLNSS*KPSSSSSKRSLGQNTRK

Parental  MLAEREEALEEADELDRLVTAKTESVQYDHPNHTVTVTTISDLDLSGAR-LLGLPPPE
          .....E...E.A.ELD.L..AKTESVQYDHPNHTVTVTTISDLDLSGA..LL.LPPPE
Retrocopy CWQREEAPEEAA-ELDQLMMAKTESVQYDHPNHTVTVTTISDLDLSGAG<LLALPPPE

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_2914 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 9 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010139	1 retrocopy	retro_amel_672,
Callithrix jacchus	ENSCJAG00000012487	1 retrocopy	retro_cjac_538,
Equus caballus	ENSECAG00000011050	1 retrocopy	retro_ecab_126,
Felis catus	ENSFCAG00000004273	1 retrocopy	retro_fcat_757,
Oryctolagus cuniculus	ENSOCUG00000017013	1 retrocopy	retro_ocun_1698,
Otolemur garnettii	ENSOGAG00000008255	1 retrocopy	retro_ogar_2914 ,
Pteropus vampyrus	ENSPVAG00000010097	1 retrocopy	retro_pvam_1022,
Tupaia belangeri	ENSTBEG00000009745	1 retrocopy	retro_tbel_3215,
Tursiops truncatus	ENSTTRG00000004799	1 retrocopy	retro_ttru_1165,