RetrogeneDB ID: retro_ttru_86

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1181:305842..306225(-)
• Located in intron of: ENSTTRG00000014206

Retrocopy information

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

Parental gene information

• Parental gene symbol: RPS24
• Ensembl ID: ENSTTRG00000007845
• Aliases: None
• Description: ribosomal protein S24 [Source:HGNC Symbol;Acc:10411]

Sequence

>retro_ttru_86
AGCAACGCAGTAACTGTCCGGACCAGGAAGTTCATGACCACCCGACTACTTCAGCGGGAACAAATGGGCACTGCTGTCCT
TCGTCCTGGGAAGGCAACAGTACCTAAGACAGAAATTTGGGGGAAACTAGCCAAAATGTACAAGACCACACCAGATGTCA
CCTTTGTGTTTGGGCTCAGAAGCCATGCTGGTGATGGCAAGACAACTGGCCTTGGCATGATTTACGATCCCTTGGGTCAC
GCGAAGCAGGATGAGCCCAAACACAGGCTTGCAAGACATGGCCTGTACGAGAAGACCTCAAGAAAGCAGCGAAAGGAGCG
CACGAGCAGAATGAAGACGGTCGTGGGGACTGCAGAGGCCAGTTTGGTGCTGACAAAAAGAAG

Alignment

ORF - retro_ttru_86 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.05 %
• Parental protein coverage: 98.48 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NDTVTIRTRKFMTNRLLQRKQMVIDVLHPGKATVPKTEIREKLAKMYKTTPDVIFVFGFRTHFGGGKTTG
          ...VT.RTRKFMT.RLLQR.QM...VL.PGKATVPKTEI..KLAKMYKTTPDV.FVFG.R.H.G.GKTTG
Retrocopy SNAVTVRTRKFMTTRLLQREQMGTAVLRPGKATVPKTEIWGKLAKMYKTTPDVTFVFGLRSHAGDGKTTG

Parental  FGMIYDSLDYAKKNEPKHRLARHGLYEKKKTSRKQRKERKNRMKKVRGTAKANV-GAGKKK
          .GMIYD.L..AK..EPKHRLARHGLYEK..TSRKQRKER..RMK.V.GTA.A...GA.KKK
Retrocopy LGMIYDPLGHAKQDEPKHRLARHGLYEK--TSRKQRKERTSRMKTVVGTAEASL<GADKKK

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_86 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_86 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 7 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Gadus morhua	ENSGMOG00000012595	1 retrocopy	retro_gmor_15,
Monodelphis domestica	ENSMODG00000025091	3 retrocopies	retro_mdom_1303, retro_mdom_1706, retro_mdom_1914,
Ornithorhynchus anatinus	ENSOANG00000006329	1 retrocopy	retro_oana_54,
Pongo abelii	ENSPPYG00000002304	1 retrocopy	retro_pabe_184,
Sarcophilus harrisii	ENSSHAG00000008090	3 retrocopies	retro_shar_276, retro_shar_303, retro_shar_697,
Sus scrofa	ENSSSCG00000010328	8 retrocopies	retro_sscr_1212, retro_sscr_14, retro_sscr_242, retro_sscr_289, retro_sscr_491, retro_sscr_564, retro_sscr_718, retro_sscr_902,
Tursiops truncatus	ENSTTRG00000007845	3 retrocopies	retro_ttru_1462, retro_ttru_740, retro_ttru_86 ,