RetrogeneDB ID: retro_tbel_2493

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_11204:194092..194495(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: OAZ2
• Ensembl ID: ENSTBEG00000008091
• Aliases: None
• Description: ornithine decarboxylase antizyme 2 [Source:HGNC Symbol;Acc:8096]

Sequence

>retro_tbel_2493
CCTTTGAGTGACTGTCCCCAGCTCTGGTGCTGCGGGCATGTTGTTCTGGGCCTCTGTGGTGCTCCTGATGCCCCTCATCC
CTGTCGGAGGTCCCCGGTGGGCCAGAGGGCCAGGGCTCCTTCTTCTTCAGCCTAATACACAGGATGAGAGGCTCACTGCG
ACCCAGGGTCTCCCTGTGAACGCCGGACACCCCGCATCCTACACATCCAGTACCAGGTCGTGGGGTGGAGGTCTCTTCCT
GGCTGCAGTCCTGTCCAGCCAGAGCCCACCTGTAGGAATCCCAGGCGGGTTAGTAGCTGATGGGAGCAGGGAAGGATTAT
TACCACTGTGAGGGTTCGCTGAGGAGAAGCTGAAAGGGAACTACGTCTTCATCTGCTTCAGGAAGGGCCGGGAAGGCTCC
GCT

Alignment

ORF - retro_tbel_2493 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.27 %
• Parental protein coverage: 72.73 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  PLSNCPQLQCCRHIVPGPLWC-DAPHP-LSKIPGGRGGGRDPSLSALIYK-DEKLTVTQDLPVNDGKP-H
          PLS.CPQL.CC.H.V.G.....DAPHP.LS..PGG...G.......LI...DE.LT.TQ.LPVN.G.P..
Retrocopy PLSDCPQLWCCGHVVLGLCGAPDAPHP<LSEVPGGPE-GQGSFFFSLIHR<DERLTATQGLPVNAGHP<R

Parental  IVHFQYEVTE-VKVSSW-DAVLSSQSLFVEIPDGLLADGSKEGLLALLEFAEEKMKVNYVFICFRKGRED
          I.H.QY.V...V.VSSW..AVLSSQS..V.IP.GL.ADGS.EGLL.L..FAEEK.K.NYVFICFRKGRE.
Retrocopy ILHIQYQVVG<VEVSSW<AAVLSSQSPPVGIPGGLVADGSREGLLPL*GFAEEKLKGNYVFICFRKGREG

Parental  RA
          .A
Retrocopy SA

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_2493 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2493 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 7 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000007344	1 retrocopy	retro_mmur_1013,
Myotis lucifugus	ENSMLUG00000022795	2 retrocopies	retro_mluc_1003, retro_mluc_2416,
Mus musculus	ENSMUSG00000040652	2 retrocopies	retro_mmus_1343, retro_mmus_2305,
Oryctolagus cuniculus	ENSOCUG00000017341	1 retrocopy	retro_ocun_1612,
Ochotona princeps	ENSOPRG00000009548	2 retrocopies	retro_opri_1184, retro_opri_145,
Tupaia belangeri	ENSTBEG00000008091	1 retrocopy	retro_tbel_2493 ,
Tursiops truncatus	ENSTTRG00000011834	1 retrocopy	retro_ttru_502,