RetrogeneDB ID: retro_tbel_353

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_1853:125593..125883(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GMNN
• Ensembl ID: ENSTBEG00000010502
• Aliases: None
• Description: geminin, DNA replication inhibitor [Source:HGNC Symbol;Acc:17493]

Sequence

>retro_tbel_353
AATCCATCTTCTCAATATTGGGAAAAAGTGACAGGAAAATAGAGGAAAACTCTGTGCAGTACTTAAGGGAAATGAGAAAC
TTAATAAAGAAATTGAACAAAAGGATGGTGGAATTGCCTGCCCGAAAAAGAAATGATGAAGGATTGGCAGAAGTAGCAGA
ATGTGTTTAGTACACGGCAGAGGCCATGATAGAGAGACTGAAAGATGAATCCCTGGAGAACTTGGAATCATCAGATAGTT
GGGGATTTGTTCTGGAAGAGGAAACTGGTGAGGATCCTGAAGTGGAAGAC

Alignment

ORF - retro_tbel_353 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.54 %
• Parental protein coverage: 50.8 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NPSSQYWKEVA-EKRRKALYEALQENEKLHKEIEQKDSEIARLKKE-NEELAELAEHARHMAE-VIERLC
          NPSSQYW..V..E.R.K.L...L..NEKL.KEIEQKD..IA..KK...E.LAE.AE.....AE..IERL.
Retrocopy NPSSQYWEKVT>ENRGK-LCAVLKGNEKLNKEIEQKDGGIACPKKK>DEGLAEVAECV*YTAEAMIERLK

Parental  GEPLNDGDSRDSKDFDSEEPV-EDSEAED
          .E.L....S.DS..F..EE...ED.E.ED
Retrocopy DESLENLESSDSWGFVLEEETGEDPEVED

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_353 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_353 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 11 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006161	1 retrocopy	retro_cjac_1012,
Microcebus murinus	ENSMICG00000014010	1 retrocopy	retro_mmur_594,
Myotis lucifugus	ENSMLUG00000014849	2 retrocopies	retro_mluc_1589, retro_mluc_743,
Monodelphis domestica	ENSMODG00000011682	1 retrocopy	retro_mdom_1800,
Mus musculus	ENSMUSG00000006715	2 retrocopies	retro_mmus_1525, retro_mmus_2213,
Oryctolagus cuniculus	ENSOCUG00000000728	1 retrocopy	retro_ocun_613,
Otolemur garnettii	ENSOGAG00000004982	1 retrocopy	retro_ogar_1726,
Ochotona princeps	ENSOPRG00000007969	1 retrocopy	retro_opri_439,
Rattus norvegicus	ENSRNOG00000018782	1 retrocopy	retro_rnor_820,
Sarcophilus harrisii	ENSSHAG00000004058	2 retrocopies	retro_shar_581, retro_shar_769,
Tupaia belangeri	ENSTBEG00000010502	2 retrocopies	retro_tbel_1028, retro_tbel_353 ,