RetrogeneDB ID: retro_ttru_579

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2739:527168..527844(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000008870
• Aliases: None
• Description: None

Sequence

>retro_ttru_579
GCGGCGGGCCGAGGAGCGATGGCGGCCGCAGACGGCGTCCGGGCGGCTGCGCAGGGCGGGGAACCTGGTCAGCCCGACAC
GCAGCCGCCCCAGCCGCCGCAAGAAGAGGTGGCGGCGTCCCCTATGGACGAAGTGTTCCTGAGCCTGGACTCGCCCACCT
ATGTCCTGTACAGGGACAGGGCAGAATGGGCTGATATAGATCCAGTGCTGCAGAATGATGGCCCCAATGCAGCGGTCCAG
ATCATTTATAGTGAAAAATTTCAAGATGTTTATGATTATTTCCGGGCTGTCCTGCAGCGTGACGAGAGAAGTGAACGGGC
TTTTAAACTAACCAGAGATGCTATCGAGTTAAATGCAGCCAATTACACAGTGTGGTATTTTCGGAGAGTTCTCTTAAAGT
CACTTCAAAAGGATCTACGTGAGGAAATGAACTACATCACGGCAAAAATTGAGGAACAGCCCCCAAAACTATCAAGTTTG
GCAGCATAGGCGAGTGCTCGTGGAATGGCTGAGAGACCCATCTCAGGAGCTTGAGTTTATTGCTGATATTCTTAATCAGG
ATGCAAAGAATTATCACGCCTGGCAACATCGACAATGGGTTATTCAGGACTTTCACTTTTGGGATAATGAGCTGCAGTAT
GTAGATCAACTTCTCAAAGAGGATGTGAGAAATAAC

Alignment

ORF - retro_ttru_579 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.07 %
• Parental protein coverage: 60.65 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AAADGVGEAAQGGEPGQPEPPPPQPHPPPPQLPQEEAAASPMDDGFLSLDSPTYVLYRDRAEWADIDPVP
          AA..G...AA.G.........P.QP...PPQ.PQEE.AASPMD..FLSLDSPTYVLYRDRAEWADIDPV.
Retrocopy AAGRGAMAAADGVRAAAQGGEPGQPDTQPPQPPQEEVAASPMDEVFLSLDSPTYVLYRDRAEWADIDPVL

Parental  QNDGPNPVVQIIYSEKFQDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLH
          QNDGPN..VQIIYSEKFQDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVW.FRRVLLKSLQKDL.
Retrocopy QNDGPNAAVQIIYSEKFQDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWYFRRVLLKSLQKDLR

Parental  EEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDN
          EEMNYITA.IEEQ.P.NYQVW.HRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQ.F..WDN
Retrocopy EEMNYITAKIEEQ>PQNYQVWQHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQDFHFWDN

Parental  ELHYVDQLLKEDVRNN
          EL.YVDQLLKEDVRNN
Retrocopy ELQYVDQLLKEDVRNN

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_579 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_579 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000003201	2 retrocopies	retro_btau_1431, retro_btau_1768,
Canis familiaris	ENSCAFG00000005385	1 retrocopy	retro_cfam_941,
Homo sapiens	ENSG00000168522	1 retrocopy	retro_hsap_805,
Macaca mulatta	ENSMMUG00000017158	1 retrocopy	retro_mmul_1078,
Monodelphis domestica	ENSMODG00000010003	1 retrocopy	retro_mdom_1656,
Nomascus leucogenys	ENSNLEG00000012979	1 retrocopy	retro_nleu_2408,
Pteropus vampyrus	ENSPVAG00000013502	2 retrocopies	retro_pvam_1157, retro_pvam_1433,
Tursiops truncatus	ENSTTRG00000008870	1 retrocopy	retro_ttru_579 ,