RetrogeneDB ID: retro_tbel_3750

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_150238:173020..173641(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COQ6
• Ensembl ID: ENSTBEG00000008327
• Aliases: None
• Description: coenzyme Q6 monooxygenase [Source:HGNC Symbol;Acc:20233]

Sequence

>retro_tbel_3750
CTCTCAGAAACCCTGAGTTCCTTGATTTGGTCCATATCCCATGAACACATAGCAGAGCTGGTCAGCATGGGTGAGGAACA
GTTCGTGGATGCCATTAACTCTGCCTTTTGGAGTGATGTTAACCACATGGACTTCATTGACTCAGCTGGCACCATGTTGC
GATATGCTGTTGCCCTTCTGAAGCCCATTAAGATCTCAGCTTGCCAACTGCCTGCAAGTGTAGCCAGCGTGGATGCCAAA
AGCTGAATGCTGTTTGCTCTCAAGTTGGGACATGCTGCTGAGTACATCCAGCCTTGGGTGGTACTCACTGGGGATGCAGA
CTACAGAGTCCATCCACTTGCTGGACAAGGTGTCAACATGGGCTTTGGGGATGTCTCCAGCTTGGCCCATCACCTCAGTA
CTACAGCCTTTAATGGGAAAGACTTAGGATCCTTGAGCCATGTCACAGGTTCTGAAACAGATAGACAGTGTCACAACACT
GCTCTCCTGGCTGCCACGAACTTCCTGAAAAGGTGGTATTCCACCAGTGCCACTCCACTTATTCTACTTAGGACTGGGGG
CTTGCAGGCCACAAATGCAGCCTCTCCACTCAAAGAACAAAGTTTGGCCTTTGCAAGCAAA

Alignment

ORF - retro_tbel_3750 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.54 %
• Parental protein coverage: 57.34 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LSDTLSSLVWSTSHEHAAELVSMGEEEFVDAINSAFWSDVNHTDFIDSAGTMLRYAVALLKPTKISARQL
          LS.TLSSL.WS.SHEH.AELVSMGEE.FVDAINSAFWSDVNH.DFIDSAGTMLRYAVALLKP.KISA.QL
Retrocopy LSETLSSLIWSISHEHIAELVSMGEEQFVDAINSAFWSDVNHMDFIDSAGTMLRYAVALLKPIKISACQL

Parental  PPSVASVDAKSRMLFPLGLGHAAEYVRPRVALIGDAAHRVHPLAGQGVNMGFGDVSSLAHHLSTAAFNGK
          P.SVASVDAKS.MLF.L.LGHAAEY..P.V.L.GDA..RVHPLAGQGVNMGFGDVSSLAHHLST.AFNGK
Retrocopy PASVASVDAKS*MLFALKLGHAAEYIQPWVVLTGDADYRVHPLAGQGVNMGFGDVSSLAHHLSTTAFNGK

Parental  DLGSMSHLTGYETDRQRHNTVLLAATDFLKRLYSTSATPLVLLRTWGLQATNAVSPLKEQIMAFASK
          DLGS.SH.TG.ETDRQ.HNT.LLAAT.FLKR.YSTSATPL.LLRT.GLQATNA.SPLKEQ..AFASK
Retrocopy DLGSLSHVTGSETDRQCHNTALLAATNFLKRWYSTSATPLILLRTGGLQATNAASPLKEQSLAFASK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq

Tupaia belangeri was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_tbel_3750 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3750 was not experimentally validated.

Homology

Retrocopy orthology:

Tupaia belangeri 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 2 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000000826	1 retrocopy	retro_eeur_321,
Tupaia belangeri	ENSTBEG00000008327	3 retrocopies	retro_tbel_2585, retro_tbel_3750 , retro_tbel_4713,