RetrogeneDB ID: retro_ttru_493

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2475:373857..374340(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARF5
• Ensembl ID: ENSTTRG00000006043
• Aliases: None
• Description: ADP-ribosylation factor 5 [Source:HGNC Symbol;Acc:658]

Sequence

>retro_ttru_493
ATTTTGATGGCTGGATTGGATGCTGCTGGCAAGACGACCATTCTGTATAAACTGAAGTTAGGAGAGGTAGTCACCAACAT
TCCTATCATTGGTTTTAATGTGGAAACAGTAGAATATAAGAACATTTGTTTCACAGTATGTGATGTTGGTGGTCAAGATA
AAATTAGGCCTCTCTGGAGGCATTACTTCCAAAGTACCCAGGGTCTTATTTTTGTGGTCGATAGCAATGATCGTGAAAGA
ATTCAGGAAGGAGCAGAAGAGCTGCAGAAAATGCTTCAGGAAGATGAGCTGCGAGATGCCATGTTTCTGCTTTTTGCAAG
CAAACAGGATTTGCCGAATGCTATGGCCATTAGTGAAATGACAGATAAATTAGGTCCTCAGTCTTTTTGTAACAGAACGT
GGTATGTTCAAGCCACTTGTGCTACACAAGGAACTGGTCTGTATGAGGGACTTGACTGGGTGTCAAATGAGCTTTCAAAA
CGT

Alignment

ORF - retro_ttru_493 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.47 %
• Parental protein coverage: 99.38 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNICFTVWDVGGQDKIRPLWRHYFQNTQGLI
          ILM.GLDAAGKTTILYKLKLGE.VT.IP.IGFNVETVEYKNICFTV.DVGGQDKIRPLWRHYFQ.TQGLI
Retrocopy ILMAGLDAAGKTTILYKLKLGEVVTNIPIIGFNVETVEYKNICFTVCDVGGQDKIRPLWRHYFQSTQGLI

Parental  FVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAMPVSELTDKLGLQHLRSRTWYVQATC
          FVVDSNDRER.QE.A.ELQKMLQEDELRDA..L.FA.KQD.PNAM..SE.TDKLG.Q....RTWYVQATC
Retrocopy FVVDSNDRERIQEGAEELQKMLQEDELRDAMFLLFASKQDLPNAMAISEMTDKLGPQSFCNRTWYVQATC

Parental  ATQGTGLYDGLDWLSHELSKR
          ATQGTGLY.GLDW.S.ELSKR
Retrocopy ATQGTGLYEGLDWVSNELSKR

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_493 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_493 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 9 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Ciona intestinalis	ENSCING00000021790	1 retrocopy	retro_cint_10,
Dasypus novemcinctus	ENSDNOG00000013387	5 retrocopies	retro_dnov_1132, retro_dnov_1251, retro_dnov_1260, retro_dnov_1407, retro_dnov_2319,
Gorilla gorilla	ENSGGOG00000016749	1 retrocopy	retro_ggor_1016,
Monodelphis domestica	ENSMODG00000015229	1 retrocopy	retro_mdom_905,
Otolemur garnettii	ENSOGAG00000013336	1 retrocopy	retro_ogar_378,
Tursiops truncatus	ENSTTRG00000004698	1 retrocopy	retro_ttru_1081,
Tursiops truncatus	ENSTTRG00000006043	1 retrocopy	retro_ttru_493 ,
Tursiops truncatus	ENSTTRG00000014186	2 retrocopies	retro_ttru_1679, retro_ttru_347,
Tursiops truncatus	ENSTTRG00000015381	1 retrocopy	retro_ttru_284,