RetrogeneDB ID: retro_ttru_81

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1172:597763..598367(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TRIML2
• Ensembl ID: ENSTTRG00000012631
• Aliases: None
• Description: tripartite motif family-like 2 [Source:HGNC Symbol;Acc:26378]

Sequence

>retro_ttru_81
AGACGGAACTGTTTGGGGAGAGAGAACATGAGTAAACTGAGGGAGAGTGAAGTCAGCTCTCTGAACAGATATGCAGCCTC
CAAAAATCACTGCAGAGCTAGAGAAGAAATGTGGGCAATCTGCCTCAGCGTCACTCCAGAATGCAAGGTATTCTTTGGAA
AGGAGAGAGTCACTACTGCTTCAGTGTCTAGAGCCCGCCCGAATCACAGACCTGAGTTTATGCCAAATAACAGGAATGAG
CAAAATGCTAAACGTGCTGCAAAGCCCTATAACTTTGGACCCGAAAACAGCTCATCCCTGTCTGGTCTTATCTGAGGATC
TGAGAAGCGTGAGACTCAGAAATGTGCAGCAGGAGGTAGCCGGTCACCCAGAGAGATGTGACTTGAGTGCCACCATATTG
GGTGTGGAGAGCTTCCCCTCAGGGCGGCACCTACTGGGGGGCGGGCGTGGAAAAGGCAACACAGTGGCGGCTGGGCGTAC
ATGGAAGCTCGGCCAGCAGAAGTGCTTCCGGAGATAAGGTCTTATTCAAGGATCCATCATGGGAACTGATTATACTTTCT
GGGCCTTTCCCCTTTTAAAAAGGGTTTCCTTGAGAGAGCAAATG

Alignment

ORF - retro_ttru_81 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.89 %
• Parental protein coverage: 52.6 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  RLNCLGRENMSKLRESEV-RLSEQICGLQK-ITTELEKKCGQSASALLQNARYSLERSESLLLQCLEPAR
          R.NCLGRENMSKLRESEV..LSEQIC.LQK.IT.ELEKKCGQSASA.LQNARYSLER.ESLLLQCLEPAR
Retrocopy RRNCLGRENMSKLRESEV<QLSEQICSLQK<ITAELEKKCGQSASASLQNARYSLERRESLLLQCLEPAR

Parental  ITDLSLCQITGMSKMLEVLQRPITLDPKTAHPCLVLSEDLRSVRLRNVQQDVPSHPERFDFSATVLGVES
          ITDLSLCQITGMSKML.VLQ.PITLDPKTAHPCLVLSEDLRSVRLRNVQQ.V..HPER.D.SAT.LGVES
Retrocopy ITDLSLCQITGMSKMLNVLQSPITLDPKTAHPCLVLSEDLRSVRLRNVQQEVAGHPERCDLSATILGVES

Parental  FTSGWH-YWEVDVEKATQWQLGVHGSSASRSASGDKVLF-TGSIMGTDYTFWAFPPLKRVSWREQM
          F.SG.H.YW...VEKATQW.LGVHGSSASRSASGDKVLF..GSIMGTDYTFWAFP.LKRVS.REQM
Retrocopy FPSGRH>YWGAGVEKATQWRLGVHGSSASRSASGDKVLF<QGSIMGTDYTFWAFPLLKRVSLREQM

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_81 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_81 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.

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000022818	2 retrocopies	retro_mdom_129, retro_mdom_1836,
Tursiops truncatus	ENSTTRG00000012631	1 retrocopy	retro_ttru_81 ,