RetrogeneDB ID: retro_ttru_740

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_322:229757..230115(+)
• Located in intron of: None

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_740
GACACAGTAACCAGCCAGGCAAGGAAATTCATGACATACCAACTGTTTCTGCAGAAACAAATGGTCATAGTGGTCCTTTA
TCCTGGGAAGGCAACAGTACCTAAGACAGAATTTGAGAAAACTAACCAAGATGTAACCAAGAGAACACATCAGATGTTTT
TGTGTTCAGATTTGAAGCCACTTTGGTGGTGGCAAAGCAACAGACTTTTATAAATTTTACAATTTCTTGGATTATGTGAA
GAGAAATCAACGCGAACAGAGATTTGTAAGATATGGCCTGGATGAGAAGGAAAGAACTCAAGAAAATCAGCAAAAGCAAT
ATAAGAACAGAGTGAAAAAAGTCAGGGTTGCTATAAAA

Alignment

ORF - retro_ttru_740 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.46 %
• Parental protein coverage: 90.91 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DTVTIRTRKFMTNRLLQRKQMVIDVLHPGKATVPKTEIREKLAKMYKTTPDV-IFVFGFR-THFGGGKTT
          DTVT...RKFMT..L...KQMVI.VL.PGKATVPKTE.........K.T.....FVF.F...HFGGGK.T
Retrocopy DTVTSQARKFMTYQLFLQKQMVIVVLYPGKATVPKTEFEKTNQDVTKRTHQM<VFVFRFE<SHFGGGKAT

Parental  GFGMIYDSLDYAKKNEPKHRLARHGLYEKKKTSRKQRKERKNRMKKVRGTAK
          .F...Y..LDY.K.N....R..R.GL.EK..T...Q.K..KNR.KKVR...K
Retrocopy DFYKFYNFLDYVKRNQREQRFVRYGLDEKERTQENQQKQYKNRVKKVRVAIK

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_740 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_740 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,