RetrogeneDB ID: retro_ttru_1142

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_105447:22836..23223(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDC34
• Ensembl ID: ENSTTRG00000000391
• Aliases: None
• Description: cell division cycle 34 [Source:HGNC Symbol;Acc:1734]

Sequence

>retro_ttru_1142
AGCGAGGAGCTGCCCTCAGAGCGGCAGAACCCCACCCAGAACATAGGACCATCTCAGAGCATCACCTCCCTCTCAGCGAA
CCCAACACTGTTTCCACCTGCCAACGTGGACGCTTCCGTGATACACACGAAGCAGGAAGAGAGCGAAGGCAGGACCGGGA
GCACGCGGACGTGAACCGGAGGCAGGTCCTGGGGACCAAGGCGGACGCGGAGCGGGACGGCGGGAAGGTCCCACCGCACT
GGCCCAGTGCTGCGGGAAGACCCAGGCCCGGTGTCCGACCAGGGCTCGGATCCTCTTCTACCAGCACGACTACAGGGCGG
CGAGGCCCAGGCCGAGGCCCGCAGCTGGGGCGGGGACGACGAGGACGACTCGGGCCACGAGGAGTCC

Alignment

ORF - retro_ttru_1142 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.21 %
• Parental protein coverage: 73.86 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SGELPSERWNPTQNVRTILLSVISLLNEPNTFSPANVDASVMYRKWKESKGK-DREYTDIIRKQVLGTKV
          S.ELPSER.NPTQN......S..SL...P..F.PANVDASV...K..ES.G..DRE..D..R.QVLGTK.
Retrocopy SEELPSERQNPTQNIGPSQ-SITSLSANPTLFPPANVDASVIHTKQEESEGR<DREHADVNRRQVLGTKA

Parental  DAERDGVKV-PTTLAEYCVKTKAPAPDEGSDLFYDDYYEDA-EAEAEADSCFG-DEDDSGTEES
          DAERDG.KV.PT.LA..C.KT.A..P.....LFY...Y..A.EA.AEA.S..G.DEDDSG.EES
Retrocopy DAERDGGKV<PTALAQCCGKTQARCPTRARILFYQHDYRAA<EAQAEARSWGGDDEDDSGHEES

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_1142 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1142 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 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000023874	1 retrocopy	retro_cpor_743,
Macropus eugenii	ENSMEUG00000000812	1 retrocopy	retro_meug_1683,
Mus musculus	ENSMUSG00000020307	1 retrocopy	retro_mmus_23,
Ochotona princeps	ENSOPRG00000001017	1 retrocopy	retro_opri_464,
Pan troglodytes	ENSPTRG00000010153	1 retrocopy	retro_ptro_52,
Rattus norvegicus	ENSRNOG00000008348	1 retrocopy	retro_rnor_1464,
Ictidomys tridecemlineatus	ENSSTOG00000023255	1 retrocopy	retro_itri_822,
Tursiops truncatus	ENSTTRG00000000391	2 retrocopies	retro_ttru_1142 , retro_ttru_98,
Tursiops truncatus	ENSTTRG00000000595	1 retrocopy	retro_ttru_1578,
Tursiops truncatus	ENSTTRG00000010587	1 retrocopy	retro_ttru_724,