RetrogeneDB ID: retro_ttru_1655

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_83497:25416..25784(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CD59
• Ensembl ID: ENSTTRG00000016371
• Aliases: None
• Description: CD59 molecule, complement regulatory protein [Source:HGNC Symbol;Acc:1689]

Sequence

>retro_ttru_1655
ATGGGAAGCAAAGGAGGGTTCGTCCCGCTTGGGCTCCTGTTCATCCTGGCTGTCCTCTGCCATGTAGGTCACAGCCTGGA
GTGCTACAGCAGTATTAACCCAGCTAATGGCTGCACTACGGTCGTCAGTTGTTCACATAATCAAGATACTTGTTTCATCG
TTAAAGCCATGCCACCAAAAACTTACTACAGTGTTGGATGTTTGACCGCTGCAGTTTGGAAGCCATTGCAAAAGGCTTAG
GGGAGAAGGAGCTTCAGTACCGCTGCTGCCAGGAGAACCTGTGTAACAAAAGTGATGGGACGAGTATATCAGGGAAAACA
GCTCTGCTGGGCATCCTGCTGCTGGTGGCAGTCTGGCACTTTTGTCTC

Alignment

ORF - retro_ttru_1655 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.65 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MGSKGGFALLGLLFSLAVVCHVGHSL-CYSCINPANGCTTTVNCSRNQDACLIVKAVPMKTYY-QCWMFD
          MGSKGGF..LGLLF.LAV.CHVGHSL.CYS.INPANGCTT.V.CS.NQD.C.IVKA.P.KTYY.QCWMFD
Retrocopy MGSKGGFVPLGLLFILAVLCHVGHSLECYSSINPANGCTTVVSCSHNQDTCFIVKAMPPKTYY<QCWMFD

Parental  RCNFAAIAKALEEKELKYDCCQKNLCNKSDGTSISGKTALLVILLLVAVWSFCL
          RC...AIAK.L.EKEL.Y.CCQ.NLCNKSDGTSISGKTALL.ILLLVAVW.FCL
Retrocopy RCSLEAIAKGLGEKELQYRCCQENLCNKSDGTSISGKTALLGILLLVAVWHFCL

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_1655 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1655 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000028508	1 retrocopy	retro_cfam_1431,
Dipodomys ordii	ENSDORG00000008867	1 retrocopy	retro_dord_659,
Mustela putorius furo	ENSMPUG00000011525	1 retrocopy	retro_mputfur_512,
Tursiops truncatus	ENSTTRG00000016371	1 retrocopy	retro_ttru_1655 ,