RetrogeneDB ID: retro_ttru_414

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2178:190374..191055(+)
• Located in intron of: ENSTTRG00000010200

Retrocopy information

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

Parental gene information

• Parental gene symbol: PORCN
• Ensembl ID: ENSTTRG00000009068
• Aliases: None
• Description: porcupine homolog (Drosophila) [Source:HGNC Symbol;Acc:17652]

Sequence

>retro_ttru_414
ATGGCCACCTTCAGCCGCCAGGAATTTTTCCAGCAGCTCCTACAGGGCTGTCTCCTGCCTACTGCCCAGCAGGGCCTTGA
CCAGATCTGGCTGCTCCTTGCCATCTGCCTCGCCTGCCGCCTCCTCGGGAGGCTTGGGTTGCCATCCTACCTGAAGCATG
CAAGCACCGTGGCAGGTGGGTTCTTCAGCCTCTACCACTTCTTCCAGCTGCACATGGTTTGGGTCATGCTGCTCTGCCTT
CTGTGCTACCTCGTGCTGTTCCTCTGCCGACATTCCTCCCATCGTGGCGTCTTCCTCTCCGTCACCATCCTCATCTACCT
ACTCATGGGTGAGATGCACATGGTGGACACTGTGACGTGGCACAAGATGCGAGGGGCCCAGATGATTGTGGCCATGAAGG
CAGTGTCTCTGGGCTTCGATCTGGACCGGGGCGAGGTGGGTGTGGTGCCCTCGCCCGTGGAGTTCATGGGCTACCTCTAC
TTTGTGGGCACCATCGTCTTTGGGCCCTGGATATCCTTCCACAGCTACCTACAGGCTGTCCAAGGCCTCCCGCTGAGCCG
CCAGTGGCTGCAGAAGGTGGCCCAGAGCCTGGTGCTGGCCCTGCTGTGCCTTGTGCTGTCCACCTGTGTGGGCCCCTACC
TCTTCCCCTACTTCATTCCCCTTGATGGTGACCACCTCCTT

Alignment

ORF - retro_ttru_414 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.15 %
• Parental protein coverage: 71.88 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MATFSRQEFFQQLLQGCL--TAQQGLDQIWLLLAICLACRLLWRLGLPSYLKHASTVAGGFFSLYHFFQL
          MATFSRQEFFQQLLQGCL..TAQQGLDQIWLLLAICLACRLL.RLGLPSYLKHASTVAGGFFSLYHFFQL
Retrocopy MATFSRQEFFQQLLQGCLLPTAQQGLDQIWLLLAICLACRLLGRLGLPSYLKHASTVAGGFFSLYHFFQL

Parental  HMVWVVLLSLLCYLVLFLCRHSSHRGVFLSVTILIYLLMGEMHMVDTVTWHKMRGAQMIVAMKAVSLGFD
          HMVWV.LL.LLCYLVLFLCRHSSHRGVFLSVTILIYLLMGEMHMVDTVTWHKMRGAQMIVAMKAVSLGFD
Retrocopy HMVWVMLLCLLCYLVLFLCRHSSHRGVFLSVTILIYLLMGEMHMVDTVTWHKMRGAQMIVAMKAVSLGFD

Parental  LDRGEVGAVPSPVEFMGYLYFVGTIVFGPWISFHSYLQAVQGRPLSRRWLQKVARSLALALLCLVLSTCV
          LDRGEVG.VPSPVEFMGYLYFVGTIVFGPWISFHSYLQAVQG.PLSR.WLQKVA.SL.LALLCLVLSTCV
Retrocopy LDRGEVGVVPSPVEFMGYLYFVGTIVFGPWISFHSYLQAVQGLPLSRQWLQKVAQSLVLALLCLVLSTCV

Parental  GPYLFPYFIPLDGDRLL
          GPYLFPYFIPLDGD.LL
Retrocopy GPYLFPYFIPLDGDHLL

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_414 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_414 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	ENSTTRG00000009068	1 retrocopy	retro_ttru_414 ,