RetrogeneDB ID: retro_ttru_590

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2797:197028..197442(-)
• Located in intron of: ENSTTRG00000011184

Retrocopy information

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

Parental gene information

• Parental gene symbol: CENPA
• Ensembl ID: ENSTTRG00000010278
• Aliases: None
• Description: centromere protein A [Source:HGNC Symbol;Acc:1851]

Sequence

>retro_ttru_590
ATGGGCCCACGCCGATGGATCCGCAAGTCCGAAGCCCCAAGGAGGCGCACCGTGAGCCCGGCTCCTGCCGCCACCCGGCC
GGGCCCATACTTAGGCACTTCCTCCCGTCGACTTGCTCGCTGGAGACATTGGGTTCTGAAGGAGATCCGAACTCTTGAGA
AGAGCACACACCTGTTGTTAAGGAAGAACCCCCTTCTGCCGCCTGGCAAGAGAAATATGTGTTAAATTCACTCGTGGTGT
GGACTTCAGTTGGCAAGCTCAGGCCATGTTGGCCCTACAAGAGGCAGCAGAAGCGTTTCTAGTTCATCTCTTTGAGGATG
CCTATCTCCTCTCCTTACATGCCAGCCGCGTCACTCTCTTCCCAAAGGATGTGCCGCTGGCCAGGAGGATCCGAGGCATC
AGGAAGGGCTCGGC

Alignment

ORF - retro_ttru_590 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.14 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MGPRRRIRKPEAPRRRPPSPAPAPPRPGPPLGAPSRPVARRRG--LKEIRTLQKSTNLLLRK-TPFCRLA
          MGPRR.IRK.EAPRRR..SPAPA..RPGP.LG..SR..AR.R...LKEIRTL.KST.LLLRK.TPFCRLA
Retrocopy MGPRRWIRKSEAPRRRTVSPAPAATRPGPYLGTSSRRLARWRHWVLKEIRTLEKSTHLLLRK>TPFCRLA

Parental  REICAVFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLSLHAGRVTLFPKDVQLARRIRGI-QEGLG
          REIC..FTRGVDF.WQAQA.LALQEAAEAFLVHLFEDAYLLSLHA.RVTLFPKDV.LARRIRGI.QEGLG
Retrocopy REICVKFTRGVDFSWQAQAMLALQEAAEAFLVHLFEDAYLLSLHASRVTLFPKDVPLARRIRGI<QEGLG

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq

Tursiops truncatus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ttru_590 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_590 was not experimentally validated.

Homology

Retrocopy orthology:

Tursiops truncatus 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.

---

Parental genes homology:

Parental genes homology involve 7 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000023938	1 retrocopy	retro_btau_947,
Choloepus hoffmanni	ENSCHOG00000004496	3 retrocopies	retro_chof_2096, retro_chof_2448, retro_chof_4,
Ornithorhynchus anatinus	ENSOANG00000000516	1 retrocopy	retro_oana_72,
Otolemur garnettii	ENSOGAG00000024154	2 retrocopies	retro_ogar_3405, retro_ogar_3505,
Ictidomys tridecemlineatus	ENSSTOG00000025168	2 retrocopies	retro_itri_835, retro_itri_994,
Tarsius syrichta	ENSTSYG00000010334	1 retrocopy	retro_tsyr_2007,
Tursiops truncatus	ENSTTRG00000010278	2 retrocopies	retro_ttru_590 , retro_ttru_784,