RetrogeneDB ID: retro_ttru_991

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_908:359669..360437(-)
• Located in intron of: ENSTTRG00000009001

Retrocopy information

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

Parental gene information

• Parental gene symbol: TTC23L
• Ensembl ID: ENSTTRG00000003264
• Aliases: None
• Description: tetratricopeptide repeat domain 23-like [Source:HGNC Symbol;Acc:26355]

Sequence

>retro_ttru_991
CTCCCACCTGTCAGCAATGACACCGACTGGGACTTCTGCTCCACCCATCACAGCACACCAAGGCCCCAGCACACCAGCGA
ACAGATGAGACTGTATCCCACTGGTGGGTCTGGAGAGAGTGAAGAGGGCACAGATGCCAAGAAGGAGAAGGCCACAGACT
GTGTCTCTTCCTGAAAAGAGAACAGCCCAGTGCCTGAAGAAAACAGCTCAACTGATTAAGGAAAAACAACGAACTCCTAA
GCAAACAAGGAGCTAATTCTGTGTGTCATCCTGTCTCGGGTTATTCTGGGGAAGAGCACTGGAAACGTGCACAGGCTTTG
GCCAACCTGGCTATGGCTGCCTGACACGGAGAGACCCCCCAGCTCAGGCCAGGAAACATGCTGTGTCCACCAAGGACGCG
CTGCTGAGCTACAAGGGAGACATGGCCGCAGACAAGGAGAGCGAGGAAATCCTGGAAGCTCTGGTCGTGCCCCGCCACAC
TCTGGGGGTGGCCTGGCTCCTGCCAAACCAAGACACAGAGGCCTGCTTCGACCTGAAGAGGCAGAGGGAACACGAAGGAG
CGAAAGAACTACATGAGGGAGGCGTCTGGGGATTACCAGTCTCAGAGAAGGACCAAGTGTTGCTTGGGGCAGGGCCTCCT
TGGCCATCTGCAGGTTGAACACAGCTCGGGCATACTTGGAACAGGCACTTGGCAACATTATTACTGCTGAGGGTGACAGG
ATGTCAGAAGTGATCGGTCTACAGAGGAACCACGCCCAGGCCCGCCAG

Alignment

ORF - retro_ttru_991 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.63 %
• Parental protein coverage: 71.99 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 7

Retrocopy - Parental Gene Alignment:

Parental  IPTVSNDTDWDFC-FHLSQQTKIPEHQQRDE-LYPTSGSGESEQD-AKAKEEKAVDRMSLPREKPAQSQK
          .P.VSNDTDWDFC..H.SQ.TK.P.HQ..DE.LYP..G........A...........SLP....AQ..K
Retrocopy LPPVSNDTDWDFC<LHPSQHTKAPAHQRTDE>LYP-TGGSGESEE>AQMPRRRRPQTVSLPEKRTAQCLK

Parental  KVAQLSK-GKM-NTQANEELIRCVILSRIIFG-EEPWKCAQALATLA-YGYVTLRGLPAQAKKHAESAKN
          K.AQL.K.GK..N..AN.ELI.CVILSR.I.G.EE.WK.AQALA.LA.YG..T.R..PAQA.KHA.S.K.
Retrocopy KTAQLIK<GKTTNS*ANKELILCVILSRVILG<EEHWKRAQALANLA<YGCLTRRDPPAQARKHAVSTKD

Parental  TLLTWKGNTTSDKERKEILETLVMLYYTLGVAWLL-QSCREAYFNMQKSERNMEELKKSYKGGASGLQAS
          .LL..KG....DKE..EILE.LV....TLGVAWLL.....EA.F...K..R..E..K....GG..GL..S
Retrocopy ALLSYKGDMAADKESEEILEALVVPRHTLGVAWLLPNQDTEACFDL-KRQREHEGAKELHEGGVWGLPVS

Parental  EKDL-TIALGRASLANRRLNLALAYFEKAVDNVIAAKGDRTSDLVGLYEEIAQIEQ
          EKD....A.GRASLA..RLN.A.AY.E.A..N.I.A.GDR.S...GL....AQ..Q
Retrocopy EKDQ<SVAWGRASLAICRLNTARAYLEQALGNIITAEGDRMSEVIGLQRNHAQARQ

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_991 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_991 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tursiops truncatus	ENSTTRG00000003264	1 retrocopy	retro_ttru_991 ,