RetrogeneDB ID: retro_ttru_499

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2494:378199..378868(-)
• Located in intron of: ENSTTRG00000000314

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000003021
• Aliases: None
• Description: None

Sequence

>retro_ttru_499
ATGTCAGAGAAGGAAACGAGGCAGAGCGGAGGCTCCCCGGAGGCCAGCGGGGTGACTGTCAGCAACATACAGGAACTGAT
ACGGTGCAAGGAGGAGATCGAGGCGCAAATCAAAGCCCATTATGACGTGCTGGAGAGCCAAAAAGGCATTGGGATGAACG
AGCCACTGGTGGACTGCGAGGGCTACCCTCGGGCAGACGTGGACCTGTACCAAGTCCGAACCGCAAGGCACAACATCGTC
TGCTTGCAGAACGATCACAAGGCGGTGACGAAGCAGGTGGAGGAGGCCCTGCACCAGCTGCATGCTCGCGACAAGGAGAA
GCAGGCCCGGGACCTGGCCGAGGCCCGCAGGGAGGCCATGAGCCACGGCCTGGGCCAGAGCCAGGACCTCAGCCCTGCTC
AGCCTTCGCCATAGCGAACAGCATCAGCCCCGGCTCCCCTGCCAGCATCGCAGGTCTGCAAGGTGGATGACGAGATAGTG
GAATTTGGCTCTGTGAACACCCAAAACTTCAAGTCCCTGCAGAACATTGGCAGTGTGGTCCAGCACAGTGAGGGGAAGGC
CCTGAATGCGACAGCGAACCGCAGAGGGGAGAAATACCAGCTTAGACTCGTGCCAACACGCTGGGCGGGAAAAGGACTGC
TGGGCTGCAACATTATTCCTTTGCAAAGA

Alignment

ORF - retro_ttru_499 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.44 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSEKETRESGGSPEASGVTASYIQELIRRKEEIEAQIKANYDVLESQKGIGMNEPLVDCEGYPRADVDLY
          MSEKETR.SGGSPEASGVT.S.IQELIR.KEEIEAQIKA.YDVLESQKGIGMNEPLVDCEGYPRADVDLY
Retrocopy MSEKETRQSGGSPEASGVTVSNIQELIRCKEEIEAQIKAHYDVLESQKGIGMNEPLVDCEGYPRADVDLY

Parental  QVRTARHNIVCLQNDHKAVMKQVEEALHQLHARDKEKQARDLAEAHREAMSHGLGQSQDLSPAQ-AFAIV
          QVRTARHNIVCLQNDHKAV.KQVEEALHQLHARDKEKQARDLAEA.REAMSHGLGQSQDLSPAQ.AFAI.
Retrocopy QVRTARHNIVCLQNDHKAVTKQVEEALHQLHARDKEKQARDLAEARREAMSHGLGQSQDLSPAQ<AFAIA

Parental  NSISPGSPASIAGLQ-VDDKIVEFGSVNTQNFQSLQNIGTVVQHSEGKPLNVTVIRRGEKYQLRLVPTRW
          NSISPGSPASIAGLQ.VDD.IVEFGSVNTQNF.SLQNIG.VVQHSEGK.LN.T..RRGEKYQLRLVPTRW
Retrocopy NSISPGSPASIAGLQ>VDDEIVEFGSVNTQNFKSLQNIGSVVQHSEGKALNATANRRGEKYQLRLVPTRW

Parental  AGKGLLGCNIIPLQR
          AGKGLLGCNIIPLQR
Retrocopy AGKGLLGCNIIPLQR

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_499 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_499 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000008038	1 retrocopy	retro_cfam_1020,
Loxodonta africana	ENSLAFG00000008585	1 retrocopy	retro_lafr_144,
Myotis lucifugus	ENSMLUG00000013501	1 retrocopy	retro_mluc_617,
Ochotona princeps	ENSOPRG00000016588	1 retrocopy	retro_opri_839,
Tursiops truncatus	ENSTTRG00000003021	1 retrocopy	retro_ttru_499 ,