RetrogeneDB ID: retro_ttru_111

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1240:66100..66670(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000012250
• Aliases: None
• Description: None

Sequence

>retro_ttru_111
TGGTTCATGTATGTGCTGAGCTGGCTGTCGCTCTTCAGCCAGGTAGCCTTCATCACGCTGGCCATTGCAGCCGGACTCTA
TTACCTGGCAGAATTGCTAGAAGAATACACGGTGGCCACCAGCAGGATCATAGAATATAGGGTCTGGTTCTCCGCAGCTA
TGCTGATTGGCCTCTATGTTTTTGAGCGTTTTCCCACCTGCATGATTGGTGTAGGCCTCTTCCTGGTCTACCTGGTCTAC
TTTGGCCTCCTCCAGACCTTCCCTTTCATCATGCTCACCTCGCCTAACTTCATCCTGTCCTGTGGGCTACTGGTGGTGAA
TCATTACCTAGCGTTTCAGTTTTTTGCAGAGGAATATTATCCTTTCTCAGAGGTCCTGGCCTATTTCACTTTCTGTCTGT
GGATAATCCCGTTTGCGTTCTTTGTGTCACCGTCGGCTGGGGAGAACGTCCTGCCTGCCACCATGCAGCCTGGAGATGAT
GTGGTCTCCAATCACTTCGCCAAAGGCAAGCGGGGCAAACGCTTAGGGGTCCTGGTTGTCTTCTCCTTCATCAAAGGGGC
CATTCTACCC

Alignment

ORF - retro_ttru_111 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.53 %
• Parental protein coverage: 99.47 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  WFMYVLSWLSLFIQVAFITLAVAAGLYYLAXXXXXXXXXXXXXXXXXXXFSTAVLIGLYVFERFPTYMIG
          WFMYVLSWLSLF.QVAFITLA.AAGLYYLA...................FS.A.LIGLYVFERFPT.MIG
Retrocopy WFMYVLSWLSLFSQVAFITLAIAAGLYYLAELLEEYTVATSRIIEYRVWFSAAMLIGLYVFERFPTCMIG

Parental  VGLF-TNLVYFGLLQTFPFIMLTSPNFILSCGLVVVNHYLAFQFFAEEYYPFSEVLAYFTFCLWIIPFAF
          VGLF...LVYFGLLQTFPFIMLTSPNFILSCGL.VVNHYLAFQFFAEEYYPFSEVLAYFTFCLWIIPFAF
Retrocopy VGLFLVYLVYFGLLQTFPFIMLTSPNFILSCGLLVVNHYLAFQFFAEEYYPFSEVLAYFTFCLWIIPFAF

Parental  FVSLSAGENVLPSTMQPGDDVVSNYFTKGKRGKRL-ILDVF-FIKEAILP
          FVS.SAGENVLP.TMQPGDDVVSN.F.KGKRGKRL..L.VF.FIK.AILP
Retrocopy FVSPSAGENVLPATMQPGDDVVSNHFAKGKRGKRLGVLVVFSFIKGAILP

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_111 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_111 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000007382	1 retrocopy	retro_mluc_581,
Tarsius syrichta	ENSTSYG00000005200	1 retrocopy	retro_tsyr_2069,
Tursiops truncatus	ENSTTRG00000012250	1 retrocopy	retro_ttru_111 ,