RetrogeneDB ID: retro_ttru_354

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1971:276038..276716(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UROS
• Ensembl ID: ENSTTRG00000003172
• Aliases: None
• Description: uroporphyrinogen III synthase [Source:HGNC Symbol;Acc:12592]

Sequence

>retro_ttru_354
ATGAAGGTTCTTTTACTGGAAGACCCTAAGGAGGACGACTGTGGCCAGGATCCCTACATCAGGGAATTAGGATTATATGG
ACTTGAAGCCACTTTGATCCCTGTTTTATCATTTGAGTTTTTGTCTCTTCCCGGCTTTTCGGAGAAGCTGTCTCACCCTG
AAGGTTACGGGGGCCTCATTTTTACCAGCCCCAGAGCAGTGGAAGCAGTGTAACTGTGTTTGGAGAAAGACAATAAAACC
GAAGTCTGGAGAAAGTCTCTGAAAGAAAAATGGAATGCTAAGTCAGTGTATGTGGTGGGAAATGCTACTGCTTCTCTAGT
GAATAAAATTGGCCTGCATACAGAAGGAGAAAACTGTGGAAATGCAGAAAAGCTTGCAGAGTGCATTTGTTCTAGGGAGT
CGTCAGCACTGCCTCTTCTGTTTCTCTGTGGAACCCTCAAAAGAGAAATCCTGCCGAAAATGCTCAAGGACAAAGGGATT
CCCGGGGAGAGCTTAACCGTCTACCAGATGATCCCACACCCAGGAATCCAGGGGAACATCAACAGCTACTATTCCCAGCA
GGGCATTCCAGCCAGCATCACGTTTTTCAGACCCTCTGGCGTGACACACAGTCTCAAGCATATTCAAGAGTTATCTGGTG
ACAACATTGACCAGATTAAGGTGCGGCTCACAGCACCC

Alignment

ORF - retro_ttru_354 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.71 %
• Parental protein coverage: 85.61 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKVLLLKDPKEDDCGQDPYIRELGLYGLEATLIPVLSFEFWSLPSFLEKLSHPEGYGGLIFTSPRAVEAV
          MKVLLL.DPKEDDCGQDPYIRELGLYGLEATLIPVLSFEF.SLP.F.EKLSHPEGYGGLIFTSPRAVEAV
Retrocopy MKVLLLEDPKEDDCGQDPYIRELGLYGLEATLIPVLSFEFLSLPGFSEKLSHPEGYGGLIFTSPRAVEAV

Parental  ELCLEKDNKTEVWRKSLAEKWNAKSVYVVGNATASLVNKIGLHTEGENCGNAGKLAEYICXXESSALPLL
          .LCLEKDNKTEVWRKSL.EKWNAKSVYVVGNATASLVNKIGLHTEGENCGNA.KLAE.IC..ESSALPLL
Retrocopy *LCLEKDNKTEVWRKSLKEKWNAKSVYVVGNATASLVNKIGLHTEGENCGNAEKLAECICSRESSALPLL

Parental  FPCGTLKREILPKMLKDKGIPVESLTVYQTIPHPGIQGNLNSYYSQQGIPASITFFSPSGLTHSLKHIQE
          F.CGTLKREILPKMLKDKGIP.ESLTVYQ.IPHPGIQGN.NSYYSQQGIPASITFF.PSG.THSLKHIQE
Retrocopy FLCGTLKREILPKMLKDKGIPGESLTVYQMIPHPGIQGNINSYYSQQGIPASITFFRPSGVTHSLKHIQE

Parental  LSGDNIDQIKFVAIGP
          LSGDNIDQIK.....P
Retrocopy LSGDNIDQIKVRLTAP

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_354 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_354 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000010900	1 retrocopy	retro_ogar_831,
Tursiops truncatus	ENSTTRG00000003172	1 retrocopy	retro_ttru_354 ,