RetrogeneDB ID: retro_ttru_718

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3165:412560..412902(+)
• Located in intron of: ENSTTRG00000016712

Retrocopy information

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

Parental gene information

• Parental gene symbol: DTD2
• Ensembl ID: ENSTTRG00000003788
• Aliases: None
• Description: D-tyrosyl-tRNA deacylase 2 (putative) [Source:HGNC Symbol;Acc:20277]

Sequence

>retro_ttru_718
CAGTGCCTGCTTGCCCAGCTGCAATTATGCCCACCAAAGGAGGATGGTGAGGCCTAATGGGTAGAGGCTGAGAGAGGATT
AGTCATCTGCGTGTTCTTTTTTTTCAAGGAAGCTGATGAAGAACTTCTCTCCAAAATGGTTAACAGGCTATTAATATGAA
ATTAAAATGAAACAGAACGGCAAACATGCCTCCAGCATATTGGATCTACCTGGCAACATTCCCATCATCCCTTATGCCAC
CCTTGGATGAAAATAAAAGGAAAAAACATACGTGATCACTCTAACTCTGAAAATGAAGAAGGATTAGAACTTCCCTCTCA
GTATGTGACTCTGTGAAAAAGA

Alignment

ORF - retro_ttru_718 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.63 %
• Parental protein coverage: 67.26 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QCLHARLQVRPAEGDAAAQWVEVQRGLVI-YLCFFKGADKELLPKMVNTLL-NVKL-SETENGKRV-SVL
          QCL.A.LQ..P...D..A.WVE..RGLVI......K.AD.ELL.KMVN.LL.N.KL.....NGK...S.L
Retrocopy QCLLAQLQLCPPKEDGEA*WVEAERGLVICVFXXXKEADEELLSKMVNRLL<NMKL<KMKQNGKHASSIL

Parental  DLPGNILIIPQATLG-GRVKGRSMQYHSNSGKEEGLELYSQFVTLCKK
          DLPGNI.IIP.ATLG....KG.....HSNS..EEGLEL.SQ.VTL.K.
Retrocopy DLPGNIPIIPYATLG<MKIKGKNIRDHSNSENEEGLELPSQYVTL*KR

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_718 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_718 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000015731	1 retrocopy	retro_amel_696,
Bos taurus	ENSBTAG00000038020	1 retrocopy	retro_btau_23,
Mustela putorius furo	ENSMPUG00000001065	1 retrocopy	retro_mputfur_1052,
Ictidomys tridecemlineatus	ENSSTOG00000025562	1 retrocopy	retro_itri_504,
Tursiops truncatus	ENSTTRG00000003788	3 retrocopies	retro_ttru_1617, retro_ttru_1832, retro_ttru_718 ,