RetrogeneDB ID: retro_ogar_1426

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873547.1:405783..406168(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ORC6
• Ensembl ID: ENSOGAG00000000688
• Aliases: None
• Description: origin recognition complex, subunit 6 [Source:HGNC Symbol;Acc:17151]

Sequence

>retro_ogar_1426
CCTGAAGTGCTAAAGAAAGCTGAGGAATACTTGGGACTGTCCCAGGTGAAGCGTGCTGGCCTGTCTGTGCCCACAGAGAC
CAGCAGTACAGTCATGCGCCAGCACCTTGCATCTTCCAAGTGTTCCTTGGACAGGGTTTATTTAATCAAAACTTTCTGGT
TTGAACAAGAAGACATAATGGAGCTATCTTAAATCCTTTGAGTGTTTCCTGGGCCTGGATTCAAATACTGGAATAAGAGA
CCTGGCTGTTCAGTGTACAGAACCAGTGAACATGGCTTCAAAGTTACTACACACCTATGAGTCCCGTCTCCCCAAGACAC
AGCAAGCAGATCTTGACTTATCCAGGCCACTTTTCACCACTGCTGCCCTGCTTTCAGCACGCAAG

Alignment

ORF - retro_ogar_1426 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.61 %
• Parental protein coverage: 52.78 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PEVLRKAEEYLRLSQVKCAGLSALTTETSSAVMCLDLAASCMKCPLDRAYLIK-LSGLNKKTYQSCLKSF
          PEVL.KAEEYL.LSQVK.AGLS...TETSS.VM...LA.S..KC.LDR.YLIK.LSGLNKKT..S.LKSF
Retrocopy PEVLKKAEEYLGLSQVKRAGLS-VPTETSSTVMRQHLASS--KCSLDRVYLIK>LSGLNKKT*WSYLKSF

Parental  ECLLGLDSNIGIRDLAVQFSCTEAVNIASKLLQSYESSLPKTQQVDLDLSRPLFTTAALLSACK
          EC.LGLDSN.GIRDLAVQ..CTE.VN.ASKLL..YES.LPKTQQ.DLDLSRPLFTTAALLSA.K
Retrocopy ECFLGLDSNTGIRDLAVQ--CTEPVNMASKLLHTYESRLPKTQQADLDLSRPLFTTAALLSARK

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_1426 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000002944	1 retrocopy	retro_chof_2302,
Dasypus novemcinctus	ENSDNOG00000010859	1 retrocopy	retro_dnov_838,
Erinaceus europaeus	ENSEEUG00000012122	1 retrocopy	retro_eeur_489,
Otolemur garnettii	ENSOGAG00000000688	1 retrocopy	retro_ogar_1426 ,
Sarcophilus harrisii	ENSSHAG00000004207	2 retrocopies	retro_shar_211, retro_shar_759,
Tupaia belangeri	ENSTBEG00000000278	1 retrocopy	retro_tbel_3089,
Tarsius syrichta	ENSTSYG00000005205	2 retrocopies	retro_tsyr_1294, retro_tsyr_889,
Tursiops truncatus	ENSTTRG00000013294	1 retrocopy	retro_ttru_1528,