RetrogeneDB ID: retro_ttru_613

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2909:206399..206768(+)
• Located in intron of: ENSTTRG00000015886

Retrocopy information

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

Parental gene information

• Parental gene symbol: DCTD
• Ensembl ID: ENSTTRG00000001460
• Aliases: None
• Description: dCMP deaminase [Source:HGNC Symbol;Acc:2710]

Sequence

>retro_ttru_613
GGACCCAGCATGAGCGAATTTCCCTGTAAAAAACGTGATGACTATTTGGAATGGCCTGAGTATTTCATGGCAGTGGCCTT
CTTATCAGCACAGAGGAGCAAAGATCCAAATTCCCAGGTGGGAGCCTGCATCGTGAATGCAGAAAACAAGATTGTGGGCA
TGGGGTCCAATGGAATGCCAAATGGATGCAGTGATGACCTCTTGCCTTGGAGGAGGACAGCGGAGAGTATACTGGATACC
AAATACCCTTAGGTGTGCCACGCCGAGCTGAATGCCATTATGAACAAAAACTCAGCCAACGTGAAAGGCTGTACCATGTA
TGTCGCCTTGTTCCCGTGTAATGAATGTGCTAAGCTCATCATCCAGGCC

Alignment

ORF - retro_ttru_613 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.93 %
• Parental protein coverage: 67.96 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GPSMSECPCKKRDDYLEWPEYFMAVAFLSAQRSKDPNSQVGACIVNAENKIVGIGYNGMPNGCSDDLLPW
          GPSMSE.PCKKRDDYLEWPEYFMAVAFLSAQRSKDPNSQVGACIVNAENKIVG.G.NGMPNGCSDDLLPW
Retrocopy GPSMSEFPCKKRDDYLEWPEYFMAVAFLSAQRSKDPNSQVGACIVNAENKIVGMGSNGMPNGCSDDLLPW

Parental  RRTAESILDTKYPYVCHAELNAIMNKNSADVKGCTMYVALFPCNECAKLIIQA
          RRTAESILDTKYP.VCHAELNAIMNKNSA.VKGCTMYVALFPCNECAKLIIQA
Retrocopy RRTAESILDTKYP*VCHAELNAIMNKNSANVKGCTMYVALFPCNECAKLIIQA

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_613 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_613 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000017516	3 retrocopies	retro_ecab_829, retro_ecab_830, retro_ecab_915,
Mus musculus	ENSMUSG00000031562	1 retrocopy	retro_mmus_3672,
Rattus norvegicus	ENSRNOG00000013215	1 retrocopy	retro_rnor_2937,
Sarcophilus harrisii	ENSSHAG00000015218	1 retrocopy	retro_shar_124,
Tursiops truncatus	ENSTTRG00000001460	1 retrocopy	retro_ttru_613 ,