RetrogeneDB ID: retro_ttru_1832

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_93560:16712..17163(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DTD2
• Ensembl ID: ENSTTRG00000003788
• Aliases: None
• Description: D-tyrosyl-tRNA deacylase 2 (putative) [Source:HGNC Symbol;Acc:20277]

Sequence

>retro_ttru_1832
ATGGCTGAAAGTGGCCGGGCACCTCAGGCTCGGGCCCTCCTGCAGCAGGGCCTGCACGCCCGGCTGCAAGTACGTCCCGA
CGAAGGGGACGCCGCGGCCCAGTGGGTGGAGGTCCAGAGAGGATTAGTGATCCACCTGTGCTTTTTCAAGGGAGCTGATA
AAGAGCTTCTTCCCAAAATGGTTAATACACTGTTAAATGTGAAATTAAGTGAAACAGAAAATGGCAAGCATGTCTCTGTA
TTGGATCTACCTGGCAACATTCTTATCGTCCCTCAAGCCACCCTTGGGGTGAGAGTAAAAGGAAGAAGCGTGCAGTATCA
CTCTAACTCTGGAAAAGAAGAGGGGTTAGAACTTTATTCCCAATTTGTGACTCTCTAAAAAAGAATTAGCTGCTAACAGC
AAGTGTGCCGAAGCTGGGGTTGTGGTGGAACATGGTACTTACGGCAACAGG

Alignment

ORF - retro_ttru_1832 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.53 %
• Parental protein coverage: 89.88 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAESGRPPQARALLQQCLHARLQVRPAEGDAAAQWVEVQRGLVIYLCFFKGADKELLPKMVNTLLNVKLS
          MAESGR.PQARALLQQ.LHARLQVRP.EGDAAAQWVEVQRGLVI.LCFFKGADKELLPKMVNTLLNVKLS
Retrocopy MAESGRAPQARALLQQGLHARLQVRPDEGDAAAQWVEVQRGLVIHLCFFKGADKELLPKMVNTLLNVKLS

Parental  ETENGKRVSVLDLPGNILIIPQATLGGRVKGRSMQYHSNSGKEEGLELYSQFVTLCKKELAANSKCAEAG
          ETENGK.VSVLDLPGNILI.PQATLG.RVKGRS.QYHSNSGKEEGLELYSQFVTL.K........C...G
Retrocopy ETENGKHVSVLDLPGNILIVPQATLGVRVKGRSVQYHSNSGKEEGLELYSQFVTL*KRISC*QQVCRSWG

Parental  -VVVEHGTYGNR
          .VV.EHGTYGNR
Retrocopy >VV-EHGTYGNR

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_1832 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1832 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
Ailuropoda melanoleuca	ENSAMEG00000015731	1 retrocopy	retro_amel_696,
Bos taurus	ENSBTAG00000038020	1 retrocopy	retro_btau_23,
Mustela putorius furo	ENSMPUG00000001065	1 retrocopy	retro_mputfur_1052,
Ictidomys tridecemlineatus	ENSSTOG00000025562	1 retrocopy	retro_itri_504,
Tursiops truncatus	ENSTTRG00000003788	3 retrocopies	retro_ttru_1617, retro_ttru_1832 , retro_ttru_718,