RetrogeneDB ID: retro_ttru_1420

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_112852:74473..74767(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RPLP2
• Ensembl ID: ENSTTRG00000012450
• Aliases: None
• Description: ribosomal protein, large, P2 [Source:HGNC Symbol;Acc:10377]

Sequence

>retro_ttru_1420
ATGCGCTACGTTGCCTCCTACCTGCTGGCCGCTCTTGGGGGCAATACCTCCCCCAGTGCCAAGGACATCCAGAAGATCCT
GGACAGCGTGGGCATCGAGGCAGACGACGACCGGCTCAACAAGGTCATCAGTGAGCTGAACGGCAAGAACATTGAGGACG
TCATTGCCCAGGGTATCCACAAGCTGGTCAGCATGCCCGCTGGCGGGGCTGTGGTCGTTTCTGCTGCCCCAGGAGCTGCA
GCTCTTGCTGCGGGTTCTGCCCCAGCAGCAGCAGAGGAGGAGAAGAAGGAGGAA

Alignment

ORF - retro_ttru_1420 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.73 %
• Parental protein coverage: 85.22 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MRYVASYLLAALGGNSSPNAKDIKKILDSVGIEADDDRLNKVISELNGKNIEDVIAQGIGKLASVPAGGA
          MRYVASYLLAALGGN.SP.AKDI.KILDSVGIEADDDRLNKVISELNGKNIEDVIAQGI.KL.S.PAGGA
Retrocopy MRYVASYLLAALGGNTSPSAKDIQKILDSVGIEADDDRLNKVISELNGKNIEDVIAQGIHKLVSMPAGGA

Parental  VAVSAAPGTAAPAVGSAPAAAEEKKEEK
          V.VSAAPG.AA.A.GSAPAAAEE.K.E.
Retrocopy VVVSAAPGAAALAAGSAPAAAEEEKKEE

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_1420 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1420 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 11 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000001777	2 retrocopies	retro_btau_117, retro_btau_1399,
Canis familiaris	ENSCAFG00000009523	1 retrocopy	retro_cfam_18,
Ciona intestinalis	ENSCING00000000626	1 retrocopy	retro_cint_34,
Felis catus	ENSFCAG00000008417	1 retrocopy	retro_fcat_860,
Macaca mulatta	ENSMMUG00000020627	2 retrocopies	retro_mmul_221, retro_mmul_311,
Nomascus leucogenys	ENSNLEG00000026860	5 retrocopies	retro_nleu_1948, retro_nleu_2144, retro_nleu_2296, retro_nleu_2762, retro_nleu_85,
Otolemur garnettii	ENSOGAG00000016296	2 retrocopies	retro_ogar_156, retro_ogar_275,
Rattus norvegicus	ENSRNOG00000002116	3 retrocopies	retro_rnor_257, retro_rnor_320, retro_rnor_388,
Sarcophilus harrisii	ENSSHAG00000001056	1 retrocopy	retro_shar_321,
Sus scrofa	ENSSSCG00000012842	1 retrocopy	retro_sscr_54,
Tursiops truncatus	ENSTTRG00000012450	1 retrocopy	retro_ttru_1420 ,