RetrogeneDB ID: retro_ttru_1027

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_100410:68596..69202(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPID
• Ensembl ID: ENSTTRG00000016269
• Aliases: None
• Description: peptidylprolyl isomerase D [Source:HGNC Symbol;Acc:9257]

Sequence

>retro_ttru_1027
GGTGAGAAACCTGCCAAATTGTACGTTATTGCAGAATGCGGAGAACTGAAGGAAGGGGATGATTGGGGAATATTCCCAAA
GGATGGATCTGGTGACAGTCATCCAGACTTCCCAGAGGATGCAGACATAGATTTAAAAGATGTAGATAAAATTTTACTAA
TAACAGAAGACTTAAAAAACATTGGAAATACTTGTTTCAAATCCCAGAACTGGGAGATGGCCATTAAAAAATACACAAAA
GTTTTAAGGTATGTGGAAGGCTCGAAGGCTGCTACTGAGAACGCAAGTGGAGCAAAGCTGCAGCCTGTCACTTTGAGCTG
CGGGCTGAATATCGGCGCCTGGAAACTGAAGATGTCTGATTGGCAGGGAGCAGTCGACAGTTGTTTGGAGGCCCTTGAAA
TAGATCCAGCAAATACCAAAGCACTGTACCGTAGAGCCCAAGGATGGCAAGGACTAAAAGAATACAATCGAGCATTGGCT
GATCTTAAGAAAGCTCAGGAGATTGCACCAGAGGATAAAGCTATCCAGGCAGAATTGCTGAGAGTCAAGCAAAAGATAAA
GGCACAGAAAGATAAAGAGAAGGCACCTTATGCAAAAATGTTTGCT

Alignment

ORF - retro_ttru_1027 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.57 %
• Parental protein coverage: 54.59 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GEKPAKLCVTADCGELKGGDDWGIFPKDGSGDSHPDFPEDADIDVKDVDKILLITEDLKNIGNTFFKSQN
          GEKPAKL.V.A.CGELK.GDDWGIFPKDGSGDSHPDFPEDADID.KDVDKILLITEDLKNIGNT.FKSQN
Retrocopy GEKPAKLYVIAECGELKEGDDWGIFPKDGSGDSHPDFPEDADIDLKDVDKILLITEDLKNIGNTCFKSQN

Parental  WEMAIKKYTKVLRYVEGSKAATENAGRAKLQPVTLSCLLNIGACKLKLSDWQGAVDSCLEALEIDPANTK
          WEMAIKKYTKVLRYVEGSKAATENA..AKLQPVTLSC.LNIGA.KLK.SDWQGAVDSCLEALEIDPANTK
Retrocopy WEMAIKKYTKVLRYVEGSKAATENASGAKLQPVTLSCGLNIGAWKLKMSDWQGAVDSCLEALEIDPANTK

Parental  ALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKEKAAYAKMFA
          ALYRRAQGWQGLKEY..ALADLKKAQEIAPEDKAIQAELL.VKQKIKAQKDKEKA.YAKMFA
Retrocopy ALYRRAQGWQGLKEYNRALADLKKAQEIAPEDKAIQAELLRVKQKIKAQKDKEKAPYAKMFA

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_1027 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1027 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.

---

Parental genes homology:

Parental genes homology involve 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012069	1 retrocopy	retro_chof_1533,
Echinops telfairi	ENSETEG00000012655	2 retrocopies	retro_etel_10, retro_etel_633,
Macaca mulatta	ENSMMUG00000017768	2 retrocopies	retro_mmul_281, retro_mmul_348,
Rattus norvegicus	ENSRNOG00000027408	1 retrocopy	retro_rnor_188,
Tursiops truncatus	ENSTTRG00000016269	1 retrocopy	retro_ttru_1027 ,