RetrogeneDB ID: retro_tbel_2585

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_113528:2889..3510(+)
• 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_2585
CTCTCAGAAACCCTGAGTTCCTTGGGTTTGGTCCACATCCCATGAACACACAGCAGAGCTGGTCAGCATGGGTGAGGAAG
AGTTCGTGGATGCCATTAACTCTGCCTTTTGGAGTGACGTTAACCACATGGACTTCACTGACTCAGCTGGCACCATGTTG
CGATATGCTGTTGCACTTCTGAAGCCCACTAAGATCTCAGCTCACCAACTGTCTCCAAGTGTAGCCAGCATGGATACCAA
AAGCCAAATGCTGTTTGCTCTGGAGTTGGGACATGCTGCCAAGTATGTCCAGCCTTGGGTGGCACTCACTGGGCATGCAG
ACTACAGAGTCCATCTACTTGCTGGACAAGGTGTCAACATGGGCTTTGGGGATGTCTCCAGCTTGGCCTATCACTTCAGT
ACTACAGCCTTTAATGGGAAAGACTTAGGCTCCATGAGCTACGTCACAGTTTCTGAAACAGATAGACAGTGTCACAACAC
TGCTCTCCTGGCTGCCATGAACTTCCTGAAAAGGCTGTATTCCACCAGTGCCACTCCACTCGTTCTACTTAGGACTTGGG
CTTCCAGGCCACAAATGCAGCTTCTCCACTCAAAGAACAAATTATGGCTTTTGCAAGCAAA

Alignment

ORF - retro_tbel_2585 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.73 %
• Parental protein coverage: 57.34 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LSDTLSSL-VWSTSHEHAAELVSMGEEEFVDAINSAFWSDVNHTDFIDSAGTMLRYAVALLKPTKISARQ
          LS.TLSSL.VWSTSHEH.AELVSMGEEEFVDAINSAFWSDVNH.DF.DSAGTMLRYAVALLKPTKISA.Q
Retrocopy LSETLSSL>VWSTSHEHTAELVSMGEEEFVDAINSAFWSDVNHMDFTDSAGTMLRYAVALLKPTKISAHQ

Parental  LPPSVASVDAKSRMLFPLGLGHAAEYVRPRVALIGDAAHRVHPLAGQGVNMGFGDVSSLAHHLSTAAFNG
          L.PSVAS.D.KS.MLF.L.LGHAA.YV.P.VAL.G.A..RVH.LAGQGVNMGFGDVSSLA.H.ST.AFNG
Retrocopy LSPSVASMDTKSQMLFALELGHAAKYVQPWVALTGHADYRVHLLAGQGVNMGFGDVSSLAYHFSTTAFNG

Parental  KDLGSMSHLTGYETDRQRHNTVLLAATDFLKRLYSTSATPLVLLRTW-GLQATNAVSPLKEQIMAFASK
          KDLGSMS..T..ETDRQ.HNT.LLAA..FLKRLYSTSATPLVLLRTW.G.QATNA.SPLKEQIMAFASK
Retrocopy KDLGSMSYVTVSETDRQCHNTALLAAMNFLKRLYSTSATPLVLLRTW<GFQATNAASPLKEQIMAFASK

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_2585 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2585 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,