RetrogeneDB ID: retro_ttru_729

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3185:260871..261735(-)
• Located in intron of: ENSTTRG00000005284

Retrocopy information

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

Parental gene information

• Parental gene symbol: GABRA5
• Ensembl ID: ENSTTRG00000010821
• Aliases: None
• Description: gamma-aminobutyric acid (GABA) A receptor, alpha 5 [Source:HGNC Symbol;Acc:4079]

Sequence

>retro_ttru_729
CATGGAATGTTCTCTAGCTTTATCATGATCAAAAGCCTCCTTCTGTTTTGTATTTCCATGAACTTAGCCAGTCACTTTGG
CTTTTCACAAATGCCAACCAGTTCTGTAAAAGATGAAACCAACGACAACATCACAGTATTCACCAGGATCTTGGATGGGC
TCCTGGATGGCTACGACAGCAGACTGAGGCCTGGGCTCAGAGAGCGTAGTACTCAGGTGAGAACGGACATCTACGTCACC
AACTTCGGCCCAGTGTCTGACACGGAAATGGAATGCACCATAGACATGTTTTTCTGACAAAGCTGGAAAGACGAAAGCCT
TCAGTTTGAAGGTCCCATGCAGCGCCTGCCCCTCAACAACCTCCTTGCCAGCAAAGTCTGGACTCCAGACACCTTGCTCC
ACAATGGGAAGAAGTCCATCGCCCACAACATGACCACGCCCAACAAGCTGCTGCGGCTGGAGGATGGCACTCTGCTGTGC
ACCGTGCGCTTGACCATCTCGGCAGAGCGCCCAATGCAGCTTGACTTCCCGATGGAGGCCCATGCCTGCCCTCTGAGATT
TGGCAGCTGTGCATATCCTAATTCCGAAGTTGTCTATGTCTGGACCAACGGCACAACCAAGTCGGTGGTGGTGGCAGTAG
ATGGCTCCAGGCTGAACCAATACCACCTGATGAGGCGGACAGTGGGCACAGAGAGCATCAGCACCAGCACAGGTGAATAC
ACAATCATGACGGCTCATTTCCATCTGAAGAGGAAGACCGGGTACTTTGTCATTCTGACCTATCTCCCCTGCGTAATGAC
TGTGATCTTGTCGCAATTGTCCTTTTGGCTGAACCGAGAATCAGTCCCAGCCGGGACAGTGTTT

Alignment

ORF - retro_ttru_729 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.28 %
• Parental protein coverage: 63.04 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NGMFSSFIMIKNLLLFCISMNLASHFGFSQMPTSSVKDETNDNITIFTRILDGLLDGYDNRLRPVLGERI
          .GMFSSFIMIK.LLLFCISMNLASHFGFSQMPTSSVKDETNDNIT.FTRILDGLLDGYD.RLRP.L.ER.
Retrocopy HGMFSSFIMIKSLLLFCISMNLASHFGFSQMPTSSVKDETNDNITVFTRILDGLLDGYDSRLRPGLRERS

Parental  TQVRTDIYVTSFGPVSDTEMEYTIDVFFRQSWKDERLRFKGPMQRLPLNNLLASKIWTPDTFFHNGKKSI
          TQVRTDIYVT.FGPVSDTEME.TID.FF.QSWKDE.L.F.GPMQRLPLNNLLASK.WTPDT..HNGKKSI
Retrocopy TQVRTDIYVTNFGPVSDTEMECTIDMFF*QSWKDESLQFEGPMQRLPLNNLLASKVWTPDTLLHNGKKSI

Parental  AHNMTTPNKLLRLEDDGTLLYTMRLTISAECPMQLEDFPMDAHACPLKFGSYAYPNSEVVYVWTNGTTKS
          AHNMTTPNKLLRLE.DGTLL.T.RLTISAE.PMQL.DFPM.AHACPL.FGS.AYPNSEVVYVWTNGTTKS
Retrocopy AHNMTTPNKLLRLE-DGTLLCTVRLTISAERPMQL-DFPMEAHACPLRFGSCAYPNSEVVYVWTNGTTKS

Parental  VVVAEDGSRLNQYHLMGQTVGTENISTSTGEYTIMTAHFHLKRKIGYFVIQTYLPCIMTVILSQVSFWLN
          VVVA.DGSRLNQYHLM..TVGTE.ISTSTGEYTIMTAHFHLKRK.GYFVI.TYLPC.MTVILSQ.SFWLN
Retrocopy VVVAVDGSRLNQYHLMRRTVGTESISTSTGEYTIMTAHFHLKRKTGYFVILTYLPCVMTVILSQLSFWLN

Parental  RESVPARTVF
          RESVPA.TVF
Retrocopy RESVPAGTVF

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_729 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_729 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	ENSTTRG00000010821	1 retrocopy	retro_ttru_729 ,