RetrogeneDB ID: retro_tbel_53

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_4934:116407..117217(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTBEG00000000681
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000017599
• Aliases: None
• Description: None

Sequence

>retro_tbel_53
CAGTACAATGTAAATTATAAACTGGGGACCTACTTGAAGATCGCTAGGTTATATCTGGAGGATGATGATCCTGCCCAGGC
AGAGGCTTACATAAATCGAGCATCATTGCTTCAGAATGAATCAACCAATGAACAGTTACAGATACATTATAAGGTATGCT
ATGCACGTGTCCTTGATTATAGAGGAAAATTCATTGAAGCTGCACAGCGGTACAATGAGCTCTCTTACAAGACGATAGTC
CATGAAAGTGAAAGACTAGAGGCCTTAAAACATGCTTTGCACTGTACCATCTTAGCATCAGCAGGACAGCAGCGTTCTCG
GATGCTGGCTACTCTTTTTAAGGATGAACGGTGCCAGCAACTTGCTCCTTACGAGATCCTAGAGAAAATGTACCTAGACA
GGATCATCAGAGGAAATCAGCTCCAAGAATTTGCTGCCATGCTGATGCCTCACCAGAAAGCAACTATGGCTGATGGTTCT
AGCATCTTGGACAGAGCTGTTATTGAACACAATTTGTTGTCCGTAAGCAAATTATATAATAATATCACCTTTGAAGAACT
TGGAGCTCTTTTAGAGATCCCTGCAGCTAAGGCAGAAAAGATAGCATCTCAAATGATAACAGAAGGACATATGAATGGAT
TTATCGACCAGATTGATGGAATAGTTCATTTTGAAACCCGAGAAGCACTGCCAACGTGGGACAAGCAGATCCAGTCACTT
CATTTCCAAGTAAATAACCTTTTGGAGAAAATTAGCCAGACAGCACCAGAATGGACAGCACAAGCCATGGAAGCCCAGAT
GGCTCAGTGA

Alignment

ORF - retro_tbel_53 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.83 %
• Parental protein coverage: 63.4 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QYNVDYKLETYLKIARLYLEDDDPVQAEAYINRASLLQNESTNEQLQIHYKVCYARVLDYRRKFIEAAQR
          QYNV.YKL.TYLKIARLYLEDDDP.QAEAYINRASLLQNESTNEQLQIHYKVCYARVLDYR.KFIEAAQR
Retrocopy QYNVNYKLGTYLKIARLYLEDDDPAQAEAYINRASLLQNESTNEQLQIHYKVCYARVLDYRGKFIEAAQR

Parental  YNELSYKTIVHESERLEALKHALHCTILASAGQQRSRMLATLFKDERCQQLAAYGILEKMYLDRIIRGNQ
          YNELSYKTIVHESERLEALKHALHCTILASAGQQRSRMLATLFKDERCQQLA.Y.ILEKMYLDRIIRGNQ
Retrocopy YNELSYKTIVHESERLEALKHALHCTILASAGQQRSRMLATLFKDERCQQLAPYEILEKMYLDRIIRGNQ

Parental  LQEFAAMLMPHQKATTADGSSILDRAVIEHNLLSASKLYNNITFEELGALLEIPAAKAEKIASQMITEGR
          LQEFAAMLMPHQKAT.ADGSSILDRAVIEHNLLS.SKLYNNITFEELGALLEIPAAKAEKIASQMITEG.
Retrocopy LQEFAAMLMPHQKATMADGSSILDRAVIEHNLLSVSKLYNNITFEELGALLEIPAAKAEKIASQMITEGH

Parental  MNGFIDQIDGIVHFETREALPTWD-QIQSL
          MNGFIDQIDGIVHFETREALPTWD.QIQSL
Retrocopy MNGFIDQIDGIVHFETREALPTWDKQIQSL

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_53 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_53 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 6 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000005067	2 retrocopies	retro_cjac_2148, retro_cjac_2345,
Equus caballus	ENSECAG00000015209	2 retrocopies	retro_ecab_315, retro_ecab_600,
Monodelphis domestica	ENSMODG00000019311	1 retrocopy	retro_mdom_824,
Mustela putorius furo	ENSMPUG00000014708	1 retrocopy	retro_mputfur_1010,
Otolemur garnettii	ENSOGAG00000027198	1 retrocopy	retro_ogar_3514,
Tupaia belangeri	ENSTBEG00000017599	2 retrocopies	retro_tbel_2134, retro_tbel_53 ,