RetrogeneDB ID: retro_ttru_1062

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_101757:105205..106077(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNF167
• Ensembl ID: ENSTTRG00000001298
• Aliases: None
• Description: ring finger protein 167 [Source:HGNC Symbol;Acc:24544]

Sequence

>retro_ttru_1062
GGGTTCCTTGTGGAGGCTCGCCCAGCCAACGCCTGCAGCCCCATTGCTCCACCGCCCTCAGCCCGTGTCAGTGGGTCAAT
TTTCATTGCACTGCTTCCAAGATTTGACTGCAACTTTGACCTCAAAGTCCTAAATGCTCAGAAGGCTGGGTATGGTGCAG
CTGTGGTGCACAATGTGAATTCCAATGAACTTCTGAGCATGCTGTGGAATAATGAGGAAATCCAGCAGCAGATCTGGATC
CCGTCTGTGTTTATCAGCGAGAGGAGCTCTAAGTACCTGCGTGACCTCTTTGTCTACCAGAAGGGGGCTCAGGTGCTTCT
GGTCCCAGATGATGGATTCCTCTTGGCCTATTGCCTCATCCTTTTCTCGGGGATTTTGGGAGTGCTAATTTTGGGCATGG
GAGCAATGTTGAGAGTTCCTTGTATTCAGCTCCAGAAAGAGCGCCAGAGAAAACCACTGACCAAAGAGCAACTGAAACAG
ATTCCTACACGTGACTCTCAGAAGGGAGACCAGTATGATGTCTGTGCTATCTGCCTGGATGCATATGAGGATGGAACAAG
CTGAGGGTACTTCCCTGTGCTCATGCCTATCACTGCTGCTGTGTGGACCCGTGGCTCACTAAGACCCAGAAGACCTGCCC
TATCTGCAAGCAGCCTGTTCGTTGGGATGCTGGTGGGGAGGAGCTGGAGGAAGGAACTCAGGGGCAAGTGGGTCATGGGG
AAGGGGGCCCAAGGGGCCACCCTGCTTCAGAATGGACCTCACTTCTGGGCTCTAGGACCACACTTCCCACCTCCTTTGGC
TCCCTAGCCCAAGCCCCCTTTGTGTTTCTTGGGTCTTCAACAGATCCCTCACCCTCTCCATCCTCCTCTTCC

Alignment

ORF - retro_ttru_1062 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.68 %
• Parental protein coverage: 98.98 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GFLVEAHPDNACSPIAPPPPAPVNGSVFIALLRRFDCNFDLKVLNAQKAGYGAAVVHNVNSNELLNMVWN
          GFLVEA.P.NACSPIAPPP.A.V.GS.FIALL.RFDCNFDLKVLNAQKAGYGAAVVHNVNSNELL.M.WN
Retrocopy GFLVEARPANACSPIAPPPSARVSGSIFIALLPRFDCNFDLKVLNAQKAGYGAAVVHNVNSNELLSMLWN

Parental  SEEIQQQIWIPSVFIGERSSEYLRALFVYEKGARVLLVPDNSFPLGYYLIPFTGIVGLLVLAMGAVMIVR
          .EEIQQQIWIPSVFI.ERSS.YLR.LFVY.KGA.VLLVPD..F.L.Y.LI.F.GI.G.L.L.MGA...V.
Retrocopy NEEIQQQIWIPSVFISERSSKYLRDLFVYQKGAQVLLVPDDGFLLAYCLILFSGILGVLILGMGAMLRVP

Parental  CIQHRKRLQRNRLTKEQLKQIPTHDYQKGDQYDVCAICLDEYEDG-DKLRVLPCAHAYHIRCVDPWLTQT
          CIQ..K..QR..LTKEQLKQIPT.D.QKGDQYDVCAICLD.YEDG..KLRVLPCAHAYH..CVDPWLT.T
Retrocopy CIQLQKERQRKPLTKEQLKQIPTRDSQKGDQYDVCAICLDAYEDG<NKLRVLPCAHAYHCCCVDPWLTKT

Parental  RKTCPICKQPVHRGPGDEEQEEETQGQEGDEEGEPRDHPASERTPLLGCTPTPPTSFGSLAPAPLVLPGS
          .KTCPICKQPV....G.EE.EE.TQGQ.G..EG.PR.HPASE.T.LLG...T.PTSFGSLA.AP.V..GS
Retrocopy QKTCPICKQPVRWDAGGEELEEGTQGQVGHGEGGPRGHPASEWTSLLGSRTTLPTSFGSLAQAPFVFLGS

Parental  STDPSPSTSAAA
          STDPSPS.S...
Retrocopy STDPSPSPSSSS

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_1062 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1062 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 13 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006392	1 retrocopy	retro_amel_43,
Bos taurus	ENSBTAG00000004913	1 retrocopy	retro_btau_217,
Canis familiaris	ENSCAFG00000015830	2 retrocopies	retro_cfam_1053, retro_cfam_84,
Dipodomys ordii	ENSDORG00000011757	2 retrocopies	retro_dord_277, retro_dord_432,
Equus caballus	ENSECAG00000021567	1 retrocopy	retro_ecab_583,
Felis catus	ENSFCAG00000011173	1 retrocopy	retro_fcat_99,
Mustela putorius furo	ENSMPUG00000010940	1 retrocopy	retro_mputfur_95,
Pteropus vampyrus	ENSPVAG00000003781	1 retrocopy	retro_pvam_1206,
Sorex araneus	ENSSARG00000011216	1 retrocopy	retro_sara_517,
Sus scrofa	ENSSSCG00000017906	1 retrocopy	retro_sscr_518,
Tursiops truncatus	ENSTTRG00000001298	1 retrocopy	retro_ttru_1062 ,
Tursiops truncatus	ENSTTRG00000007536	1 retrocopy	retro_ttru_6,
Tursiops truncatus	ENSTTRG00000016450	1 retrocopy	retro_ttru_351,