RetrogeneDB ID: retro_ttru_1381

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_111785:155146..155701(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000005714
• Aliases: None
• Description: None

Sequence

>retro_ttru_1381
GAGGCCCACGGCAAATCCCAGCCCGATGCGAGCTGTTCGTCATTTTCCCGGGACAGCTCCAGGGTCTTGGTGTCTAGAGA
GCTGCTGATGGAGGGCAGGGGCGGCCGCGGAGGTATATGGGACAGGTTGCTCATCAACTCCAAGCGTAATTCCAGAAAGA
ATTCCACTCTTCAAACAGGTCGGATAGAGAGGAGTCCCCTATTGGACCAGGTACAGAGCTTTCTCCCACAGATGGCTCAG
GCAAACAAAAAGCTAAGGAAAGGAATATCAACTGCACCACCTGGTCATTTCAATATTGAAAATATTGACACTCTCGGAAA
AGTTATGCAAATGGATATGATCTTGTTTGAGATGAATCAGTCTGATTCAAAAGAAGATGACAGTTCACAAGAGAATTCAC
AAGACAGTTCAGAGGACAGTTCAGAATTTGAGGATGAAGATGATAGCACCTCTTCTGAACGTGAAGTCACCATCGATACA
ATTAAGCTTCCTCATTCAGAAGATGGAAAAGGCAAAATAGAGGTTCTGGACCGTCCTGCCAGTGAAAAAAAGAAA

Alignment

ORF - retro_ttru_1381 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.49 %
• Parental protein coverage: 98.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EAHGESQPDASCSSFTRDGSGVSVSRELLTAGSGGRGGIWDRLLINSKPNSRKNSTLQTVRIERSPLLDQ
          EAHG.SQPDASCSSF.RD.S.V.VSRELL..G.GGRGGIWDRLLINSK.NSRKNSTLQT.RIERSPLLDQ
Retrocopy EAHGKSQPDASCSSFSRDSSRVLVSRELLMEGRGGRGGIWDRLLINSKRNSRKNSTLQTGRIERSPLLDQ

Parental  VQSFLPQMAQANEKLRKEVAAAPPGHFNIENIDETVGKVIQMDVALFEMNQSDSKEEDSSEENSQDCSED
          VQSFLPQMAQAN.KLRK....APPGHFNIENID.T.GKV.QMD..LFEMNQSDSK...............
Retrocopy VQSFLPQMAQANKKLRKGISTAPPGHFNIENID-TLGKVMQMDMILFEMNQSDSKXXXXXXXXXXXXXXX

Parental  SSEFEDEDDSTSSEGEVTIDTIKLPHSEDGKGKIEVLDHPASEKKK
          ...FEDEDDSTSSE.EVTIDTIKLPHSEDGKGKIEVLD.PASEKKK
Retrocopy XXXFEDEDDSTSSEREVTIDTIKLPHSEDGKGKIEVLDRPASEKKK

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_1381 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1381 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 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000014728	1 retrocopy	retro_cjac_333,
Dasypus novemcinctus	ENSDNOG00000017235	1 retrocopy	retro_dnov_2327,
Homo sapiens	ENSG00000151131	1 retrocopy	retro_hsap_292,
Gallus gallus	ENSGALG00000012694	1 retrocopy	retro_ggal_15,
Gorilla gorilla	ENSGGOG00000027272	1 retrocopy	retro_ggor_331,
Macaca mulatta	ENSMMUG00000017133	1 retrocopy	retro_mmul_551,
Nomascus leucogenys	ENSNLEG00000006584	1 retrocopy	retro_nleu_2414,
Pongo abelii	ENSPPYG00000004897	1 retrocopy	retro_pabe_382,
Pan troglodytes	ENSPTRG00000005381	1 retrocopy	retro_ptro_240,
Sus scrofa	ENSSSCG00000027792	2 retrocopies	retro_sscr_105, retro_sscr_153,
Tursiops truncatus	ENSTTRG00000005714	1 retrocopy	retro_ttru_1381 ,