RetrogeneDB ID: retro_ttru_1152

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_105773:45229..45727(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RPP30
• Ensembl ID: ENSTTRG00000014708
• Aliases: None
• Description: ribonuclease P/MRP 30kDa subunit [Source:HGNC Symbol;Acc:17688]

Sequence

>retro_ttru_1152
AGAGCAACTTCTTCAAGAGTCCGGCTGTACGATACCGTTGCAGTTTTTTGAAGACAGAAAACCTTTTTCATATTGCTTGT
ACACATTTAGATGTGGATTTAGTCTGCATAACTGTAACACAGAAGCTACCATTTTACTTCAAAAGACCCCCTATTAAAGT
GGCAATTGAGTGAGGTGTGGGCTTTGAACTTGTCTATAGCCCCCCTGTCAAAGACTCCACAATGAGAAGGTACACAGTTT
CCAACGCCCTCAATTTGATGCAGGTCTGCAAAGGAAAGAATGTAATTATATCTAGTGCTGCTGAAAGGCCTTTAGAAATA
AGAGGCCCATACGATGTGGCAAACGTACAGTTGTTGTTTGGGCTGTTGGAAAGTGACACCAAGGCTGCAGTGTCCACCAA
CTGCCAAGCGGTGCTTCTGCATGGAGGGAGAAGCTAGAAAAACTGCTTTTGGAATTATTTTCACGGTGAAGAAATCTCGG
ACATCAGAAGTAGATGAT

Alignment

ORF - retro_ttru_1152 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.33 %
• Parental protein coverage: 61.74 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  RATSSRVRLYDIVAVF-PKTEKLFHVACTHLDVDLVCITVTEKLPFYFKRPPINVAIDRGVGFELVYSPA
          RATSSRVRLYD.VAVF..KTE.LFH.ACTHLDVDLVCITVT.KLPFYFKRPPI.VAI..GVGFELVYSP.
Retrocopy RATSSRVRLYDTVAVF<LKTENLFHIACTHLDVDLVCITVTQKLPFYFKRPPIKVAIE*GVGFELVYSPP

Parental  IKDSTMRRYTISNALNLMQVC--KNVIISSAAERPLEIRGPYDVANLGLLFGLSESDAKAAVSTNCRAVL
          .KDSTMRRYT.SNALNLMQVC..KNVIISSAAERPLEIRGPYDVAN..LLFGL.ESD.KAAVSTNC.AVL
Retrocopy VKDSTMRRYTVSNALNLMQVCKGKNVIISSAAERPLEIRGPYDVANVQLLFGLLESDTKAAVSTNCQAVL

Parental  LH-GETRKTAF-GIISTVKKPRTSEVDD
          LH.G...K..F.GII.TVKK.RTSEVDD
Retrocopy LHGGRS*KNCF>GIIFTVKKSRTSEVDD

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_1152 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1152 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000006863	2 retrocopies	retro_mdom_1388, retro_mdom_1798,
Ochotona princeps	ENSOPRG00000007367	1 retrocopy	retro_opri_855,
Tursiops truncatus	ENSTTRG00000014708	1 retrocopy	retro_ttru_1152 ,