RetrogeneDB ID: retro_ttru_88

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1184:240240..240624(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ALG14
• Ensembl ID: ENSTTRG00000016557
• Aliases: None
• Description: ALG14, UDP-N-acetylglucosaminyltransferase subunit [Source:HGNC Symbol;Acc:28287]

Sequence

>retro_ttru_88
ATGGGTGGCACCCTTATCCTCGTGGCGGCGGCAGGAGCCGTGGCCGTGCTGCTGGCAGTGCGGCTATGGGTAGTGCTGCG
TCCCCGCGCCGCTGTGCTCCGGCGGTCTCTCAGCCTCTTGGTGGTGGCTGGGTCCGGTGGGCATACCACTGAGATCCTGA
GGCTGCTCGAGAACTTGTACGATGCCTACTCTCCTAGACGTTATATCATTGCTGACACTGATGAAATGAGTGCCCGTAAA
ATAAATTCTTTTGAAGTAAATCGAGCTGATAGAAACTCCAGTGCTACGTTTCCCGAATACTATATTCACCGCATTCCCAG
AAGCCGGGAGGTCCAGCAGTCCTGGCTGTCTACGGTACTCACCACCTTGTACTCTGTGTGGCTC

Alignment

ORF - retro_ttru_88 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.19 %
• Parental protein coverage: 59.26 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGGTLILAAAAGAVAVLLAVRLWVVLRPRAAVPRRSLSLLVVAGSGGHTTEILRLLENLSDAYSPRHYII
          MGGTLIL.AAAGAVAVLLAVRLWVVLRPRAAV.RRSLSLLVVAGSGGHTTEILRLLENL.DAYSPR.YII
Retrocopy MGGTLILVAAAGAVAVLLAVRLWVVLRPRAAVLRRSLSLLVVAGSGGHTTEILRLLENLYDAYSPRRYII

Parental  ADTDEMSAHKINSFEGNRADRNPSAMFTEYYIHRIPRSREVQQSWLSTVLTTLYSLWL
          ADTDEMSA.KINSFE.NRADRN.SA.F.EYYIHRIPRSREVQQSWLSTVLTTLYS.WL
Retrocopy ADTDEMSARKINSFEVNRADRNSSATFPEYYIHRIPRSREVQQSWLSTVLTTLYSVWL

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_88 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_88 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000008564	1 retrocopy	retro_dord_482,
Procavia capensis	ENSPCAG00000014267	1 retrocopy	retro_pcap_280,
Ictidomys tridecemlineatus	ENSSTOG00000025476	1 retrocopy	retro_itri_1820,
Tursiops truncatus	ENSTTRG00000016557	1 retrocopy	retro_ttru_88 ,