RetrogeneDB ID: retro_ttru_1857

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_94982:35107..35429(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CMTM6
• Ensembl ID: ENSTTRG00000003526
• Aliases: None
• Description: CKLF-like MARVEL transmembrane domain containing 6 [Source:HGNC Symbol;Acc:19177]

Sequence

>retro_ttru_1857
CTTCCAGCTGTTCTCTCTCTGCTAGCCTTTAGCTGGGAAGAGGTTGTATTACAATATACATTTTGTGGAGGATTTGAATT
TTTTAAATTTTGTATGATACATGCCTTTTTTACTAGTCTCCTTATTCTGACTGTGTGTTTTATGTACCCCAGTTTATGGA
AAAGTTCTTGCTCCAAAAATAAAATTATTAGATATTTATATTACTCTGGAGATAGGAAGTGTATTTTTGTTGGCATCCAT
CATTTTTGTTACCACAAATGGCAAAACTTCAGCTTAAATTACTACAATTGAGTTTGGGTTTTTAACAAGTTTTATGTTGC
TA

Alignment

ORF - retro_ttru_1857 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.56 %
• Parental protein coverage: 59.22 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LQLVLSLLAFICEEVVSQCTLCGGLYFFEFVSCSA-FLL-SLLTLIVYCTPVYDKVDPAKVKSSDFYITV
          L..VLSLLAF..EEVV.Q.T.CGG..FF.F....A.FLL.SL..L.V.CTPVY.KV...K.K..D.YIT.
Retrocopy LPAVLSLLAFSWEEVVLQYTFCGGFEFFKFCMIHA>FLLVSLF*LCVLCTPVYGKVLAPKIKLLDIYITL

Parental  GTGLVFLVASILFALTHDSTPAELAAIVFGFLASFVFL
          ..G.VFL.ASI.F..T...T.A....I.FGFL.SF..L
Retrocopy EIGSVFLLASIIFVTTNGKTSA*ITTIEFGFLTSFMLL

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_1857 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1857 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000015014	1 retrocopy	retro_dnov_1,
Otolemur garnettii	ENSOGAG00000026982	1 retrocopy	retro_ogar_97,
Pan troglodytes	ENSPTRG00000014720	1 retrocopy	retro_ptro_3147,
Tursiops truncatus	ENSTTRG00000003526	1 retrocopy	retro_ttru_1857 ,
Vicugna pacos	ENSVPAG00000003039	1 retrocopy	retro_vpac_376,