RetrogeneDB ID: retro_ttru_1480

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_114315:9021..10417(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DIEXF
• Ensembl ID: ENSTTRG00000001122
• Aliases: None
• Description: digestive organ expansion factor homolog (zebrafish) [Source:HGNC Symbol;Acc:28440]

Sequence

>retro_ttru_1480
CTTCACACCCCTCCAGAAAGAGCTCTTCTTAATTATGAATTCTTACCGGGACCTGTTCTACCCAGAAAGGACTGGACACG
TCCTCAAAGCCAATACCCAGGTGCGTACCAACAACAGCAGGTGCCGAAGCCAGAAACTTGGGGTGGGTGATGATGATGAC
TTCAGGGACCAAGGGCTAACAAGGCCCAAGGTGCTGATAGTGGTGCCATTCCGCGAAGCTGCTTTGCGGGTGGTACAGCT
CTTCATCAGTCTTCTTGAGGGCGACAGCAAGAAGAAAATAATTGTAGGCAACAAAAAGAGGTTTAATGGAGAGTATGGCT
CAGATCCCGAGGAGAGGCCACCCAACCTGAAGAGGCCTGAGGATTATGAAGCTGTATTTGTCGGCAACATCGATGACCAG
TTCAGGACTGGAGTGGCAATACTGCAGAGAAGCATCCGACTTTATGCCCCCTTCTATTCGTCAGACATCCTCATTGCCTC
CCCTCTGGGCTTGAGGACCATCATTGGTGGAGAAGGAGAGAAGAAGAGAGATTTTGACTTTCTGTCTTCTATTGAGCTTC
TCATCATTGATCAAGCTGACATTTACCTGATGCAGAACTGGGAGCATGTCTTGCATTTGATGAACCACATGGACCTACTG
CCCTTGGACTCACATGGGGTGGACTTTTCTCGAGTGCGCATGTGGAGCCTCAATAATTGGTCCAAGTACTATCGTCAGAC
GCTGCTGTCTGGGGCCCTGCAGGATGCCCAGATCAACTCTGTGTTCATCAAATACTGCGTCCATGGGCAAGGCCAGGTGG
CTGTGAGGAACGTCCCGATGACAGGCTGCATCAGTCATGTCCTGGTGCAGCTCCCACGTGTCTTCCAGAGGATGGAAGCT
GAAAACCTAGCTTCAGTGATTGATGCCAGGTTTAACTTTTTCGTCAACAAGATTTTGCCTCAGTATCGTGATGCAGTCAT
GTCTCACACGCTTATCTATGTCCCCTCCTACTTGGACTTTGTGCGTCTCCGAAATTACTTCAAGAAGGAGGAACTGAACT
TCACTCATATCTGCGAGTGTGCCCAGAAGTCTGGTGTCTCCAGGGCCAGACACTTCTTCCTTCAAGGAGAGAAGCAGTTC
CTGCTCCTCACAGAGCGCTTCCATTTCTACAAAAGATACACAATAAAAGGCATCAGGAACCTGATTTTCTATGAACTGCC
AACATATCCCCACTTCTACAGTGAAGTCTGTAACATGCTGCAAGCCACCACCAGAGGAGAGGAAGCTGCCTGGACCTGCA
CTGTCCTCTACTCCAAGTACGATGCCCAGAGGTTGGCTGCTGTGGTCGGGGTCGAGCGGGCTGCACAGATGCTGCAGTCC
AAGAAGAACGTCCACCTCTTCATTACTGGAGAGAGA

Alignment

ORF - retro_ttru_1480 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.49 %
• Parental protein coverage: 61.84 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LFYPERTALKNGEEI-RHVYCLHVINHVLKANAQVLANNSRCRSQKLGVGDDDDFRDQGLTRPKVLIVVP
          L..P...AL.N.E...R.........HVLKAN.QV..NNSRCRSQKLGVGDDDDFRDQGLTRPKVLIVVP
Retrocopy LHTPPERALLNYEFL>RDLFYPERTGHVLKANTQVRTNNSRCRSQKLGVGDDDDFRDQGLTRPKVLIVVP

Parental  FREAALRVVQLFISLLEGDSKKKITVSNKKRFNGEYGSDPEERPPNLKRPEDYEAVFVGNIDDHFRTGVA
          FREAALRVVQLFISLLEGDSKKKI.V.NKKRFNGEYGSDPEERPPNLKRPEDYEAVFVGNIDD.FRTGVA
Retrocopy FREAALRVVQLFISLLEGDSKKKIIVGNKKRFNGEYGSDPEERPPNLKRPEDYEAVFVGNIDDQFRTGVA

Parental  ILQRSIRLYAPFYSSDILIASPLGLRTIIGGEGEKKRDFDFLSSIELLIIDQADIYLMQNWEHVLHLMNH
          ILQRSIRLYAPFYSSDILIASPLGLRTIIGGEGEKKRDFDFLSSIELLIIDQADIYLMQNWEHVLHLMNH
Retrocopy ILQRSIRLYAPFYSSDILIASPLGLRTIIGGEGEKKRDFDFLSSIELLIIDQADIYLMQNWEHVLHLMNH

Parental  MNLLPLDSHGVDFSRVRMWSLNNWSKYYRQTLLFGALQDAQINSVFNKYCVNVQGQVAVRNVPMTGCISH
          M.LLPLDSHGVDFSRVRMWSLNNWSKYYRQTLL.GALQDAQINSVF.KYCV..QGQVAVRNVPMTGCISH
Retrocopy MDLLPLDSHGVDFSRVRMWSLNNWSKYYRQTLLSGALQDAQINSVFIKYCVHGQGQVAVRNVPMTGCISH

Parental  VLVQLPHVFQRMEAENLASVIDARFNFFVNKILPQYRDAVMSHTLIYVPSYFDFVRLRNYFKKEDLNFTH
          VLVQLP.VFQRMEAENLASVIDARFNFFVNKILPQYRDAVMSHTLIYVPSY.DFVRLRNYFKKE.LNFTH
Retrocopy VLVQLPRVFQRMEAENLASVIDARFNFFVNKILPQYRDAVMSHTLIYVPSYLDFVRLRNYFKKEELNFTH

Parental  ICEYTQKSGVSRARHFFLQGEKQFLLLTERFHFYKRYTIKGIRNLIFYELPTYPHFYSEVCNMLQATTRG
          ICE..QKSGVSRARHFFLQGEKQFLLLTERFHFYKRYTIKGIRNLIFYELPTYPHFYSEVCNMLQATTRG
Retrocopy ICECAQKSGVSRARHFFLQGEKQFLLLTERFHFYKRYTIKGIRNLIFYELPTYPHFYSEVCNMLQATTRG

Parental  EEAAWTCTVLYSKYDAQRLAAVVGVERAAQMLQSKKNVHLFITGER
          EEAAWTCTVLYSKYDAQRLAAVVGVERAAQMLQSKKNVHLFITGER
Retrocopy EEAAWTCTVLYSKYDAQRLAAVVGVERAAQMLQSKKNVHLFITGER

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_1480 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1480 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tursiops truncatus	ENSTTRG00000001122	1 retrocopy	retro_ttru_1480 ,