RetrogeneDB ID: retro_tbel_13

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_109684:3752..4013(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTBEG00000007953
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: KRTAP4-1
• Ensembl ID: ENSTBEG00000008312
• Aliases: None
• Description: keratin associated protein 4-1 [Source:HGNC Symbol;Acc:18907]

Sequence

>retro_tbel_13
ACCTGCTGCCGCCCCAGCTGCTGTGTGTCCAGCTGTTGTAGGCCCTGCTGTTCTGGTTCTAGCTGTTGTGGATCCAGCTG
TTTCCGTCCCAGCTGCTGTCAGACCACCTGCTACCAGCCTACCTGCTGTGTATCCAGTTGCTGCAGGCCCAGCTGTTGTC
GTCCCAGCTGCTGTGTGTCCAGCTGTTGCCGCCCCTCATGTTGCCAGACCACCTGCTGTAGAACAACTTGCTGTCGCCCC
AGCTGCTGTGGCGGTTCTTGC

Alignment

ORF - retro_tbel_13 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.2 %
• Parental protein coverage: 77.36 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SCCGSTCSGQSCGQTCCCRPTCCQTTCCRTTCCRPSCCVSCCCRPTCCQTTCCRTTCCRPSCCQTTCCRT
          SCC.S.C....C....CC...C....CC.TTC..P.CCVS.CCRP.CC...CC...CCRPSCCQTTCCRT
Retrocopy SCCVSSCCRPCCSGSSCCGSSCFRPSCCQTTCYQPTCCVSSCCRPSCCRPSCCVSSCCRPSCCQTTCCRT

Parental  TCCRPSCCGTTC
          TCCRPSCCG..C
Retrocopy TCCRPSCCGGSC

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_13 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_13 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000005246	1 retrocopy	retro_fcat_1673,
Otolemur garnettii	ENSOGAG00000003102	1 retrocopy	retro_ogar_94,
Ictidomys tridecemlineatus	ENSSTOG00000004308	1 retrocopy	retro_itri_544,
Tupaia belangeri	ENSTBEG00000008312	1 retrocopy	retro_tbel_13 ,