RetrogeneDB ID: retro_ttru_1604

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_56958:622..1030(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TYW3
• Ensembl ID: ENSTTRG00000010464
• Aliases: None
• Description: tRNA-yW synthesizing protein 3 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:24757]

Sequence

>retro_ttru_1604
CATTCAGTGGCAATAGATTCTGCTTTCAGGAACTCTGGCATAATAGTAGGAAAGAGAGGAAAGACTGTGTTGGCTGTCCA
GAGCACACATGGCTTAGAAGTTCCATTAAGCCATAAAGGAAAACTGATGGTGACAGAGGAATATACTGACTTCCTGTTAA
AGATAAGCAAATCAAAAAATGGAGGAAAGCAAGAAGAGAATTGAAAGGTTTTCTGCCTATAACATGCTTTGTAAAAAGAA
ACTATTTCTACTACCTCACATCCCAAAGAGAAAATCAAAGAGAAAAATAACTCATCATATACTCATAAGAAAAAAAGAAA
CCCAGAAAAAGCACATGGCAAATGTATTACTGAAGGAAGTGATAAATAACTTGAAAATGATGAGCACGATGATCCAGGAA
TCAGGGTG

Alignment

ORF - retro_ttru_1604 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.12 %
• Parental protein coverage: 52.29 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  HSVAIDSGFRNSGITVGKRGKTMLAVRSTHGLEVPLTHKGKLMVTEEYINFLIKIANQKMEENKKRIERF
          HSVAIDS.FRNSGI.VGKRGKT.LAV.STHGLEVPL.HKGKLMVTEEY..FL.KI...K...........
Retrocopy HSVAIDSAFRNSGIIVGKRGKTVLAVQSTHGLEVPLSHKGKLMVTEEYTDFLLKISKSKNGGKQEEN*KV

Parental  YNCLQHALEKETISMTSYPKEKIKEKNNSSCTHKKKRNPEKACGKYITEGNNKELEIDDHDDPGISV
          ..CL.HAL.KETIS.TS.P....................EKA.GK.ITEG..K.LE.D.HDDPGI.V
Retrocopy F-CL*HAL*KETISTTSHPXXXXXXXXXXXXXXXXXXXXEKAHGKCITEGSDK*LENDEHDDPGIRV

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_1604 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1604 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000002718	1 retrocopy	retro_dord_487,
Echinops telfairi	ENSETEG00000012572	1 retrocopy	retro_etel_845,
Tursiops truncatus	ENSTTRG00000010464	1 retrocopy	retro_ttru_1604 ,