RetrogeneDB ID: retro_ttru_267

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1734:254331..254855(+)
• Located in intron of: ENSTTRG00000006202

Retrocopy information

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

Parental gene information

• Parental gene symbol: PRIM2
• Ensembl ID: ENSTTRG00000000894
• Aliases: None
• Description: primase, DNA, polypeptide 2 (58kDa) [Source:HGNC Symbol;Acc:9370]

Sequence

>retro_ttru_267
ATGCAGTTTCTTGGAGGAAATCGGAGGAAACTGAGGTTGGCAGATGACCAGAGGAATGCTTGCTACCCACATAGCATTCT
GTTTTACTTGCAGCCGCCTTCTGGAAACATATCTTTGATAGAATTTGAAAACTTGGCTACGATAGAGTTAAATTGCTGAA
AGCAGTTAAGAGTCTTGGTGTGAGCTATGTGAAAGGAACCGAGCAGTACCAGAGAAAGCTGGAGGCTGAGCTTCAGAAGC
TTAAGTTTTCCTACAGAGAAAACTTGGAAGATGAATATGAACCCCGAAGAAGAGATCACGTTTCTCACTTTATTTTACAC
CTTGCTTACTGCCAGTCTGAAGAGCTTAGGCGCTGGTTCATTCAACAAGAAATGAATCTCCTTCTATTTCAATTCAGTAT
ATTACCCAAGGACAAAATTCAGAGTTTCTTAAAGGATAGCCATTTGCAGTTTGAGGCTATAAGTGATGAAGAGAAGACTC
TGCGAGAACAGGATATTGTGGCTTCATCACACAATAGGTGGGGT

Alignment

ORF - retro_ttru_267 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.64 %
• Parental protein coverage: 50.43 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MQFLGGNRRKLRLADDQRNACYPHSLQFYLQPPSGNISLIEFENLAI-DRVKLLKAVENLGVSYVKGSEQ
          MQFLGGNRRKLRLADDQRNACYPHS..FYLQPPSGNISLIEFENLA..DRVKLLKAV..LGVSYVKG.EQ
Retrocopy MQFLGGNRRKLRLADDQRNACYPHSILFYLQPPSGNISLIEFENLAT<DRVKLLKAVKSLGVSYVKGTEQ

Parental  YQSKLEAELRKLKFSYRENLGDEYEPRRRDHISHFILRLAYCQSEELRRWFIQQEMDLLRFRFSILPKDK
          YQ.KLEAEL.KLKFSYRENL.DEYEPRRRDH.SHFIL.LAYCQSEELRRWFIQQEM.LL.F.FSILPKDK
Retrocopy YQRKLEAELQKLKFSYRENLEDEYEPRRRDHVSHFILHLAYCQSEELRRWFIQQEMNLLLFQFSILPKDK

Parental  IQSFLKDSHLQFEAISDEDKTLREQDIMASSHSLGG
          IQSFLKDSHLQFEAISDE.KTLREQDI.ASSH...G
Retrocopy IQSFLKDSHLQFEAISDEEKTLREQDIVASSHNRWG

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_267 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_267 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	ENSTTRG00000000894	1 retrocopy	retro_ttru_267 ,