RetrogeneDB ID: retro_ttru_1186

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_106651:100262..100819(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AURKAIP1
• Ensembl ID: ENSTTRG00000017044
• Aliases: None
• Description: aurora kinase A interacting protein 1 [Source:HGNC Symbol;Acc:24114]

Sequence

>retro_ttru_1186
ATGTTCGTGGTGTGTCTGACTTCCCAGCTGCTCAAGGCTGTTCCCTGGGCAGGCTGCAGTGCGTCCTGGCCTGTCTTTGG
GGTGCTGGGCAGGCATGACTGCAGGTCTCGCTACAGCACACAACCAACAGGCCCAAGTGGGGTTGCCTCCTTCCCTGGCA
GGTGGGTCCACATGTAGCTTGAGGAGATGCGGGTCCCCAGGAAGATGTCCATCAGCCCCCTGGAGGGCTGGCTGACTGTT
CACTACCCCCTGCCCAGACTGGACGCTGGGACCCCAGGGACTGTGTCTCTAGCCCAACTCTATGAGTGTCCACCAGCCAG
GTGGGGGAAGGGGTCGAGCAGAGTGGTAAGGAGGTCTGGGATGCACCCCAGATACAGTGCAAAAATGTGCTCAAGATCCA
CCGGCAGAAGTGGAATCATCACAAGTAACACAAGCTGGTCAAAAGGACCTGGTACCTGTGGCAGAAAGTCAGGGAAGGAC
ACCTGAATCGGAAGCAGATGAAGTTGGAGAGACACCTGAGGTGCATCTGGCGGGAGGCGGGCCTGAAGGAAGCCCCC

Alignment

ORF - retro_ttru_1186 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.33 %
• Parental protein coverage: 93.47 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MFMVRLTSQLLRAVPRAGCSGPWPVCGVLGRHACRPRYSMQPIGPSGVASLPDRRVHMELEEMLVPRKMC
          MF.V.LTSQLL.AVP.AGCS..WPV.GVLGRH.CR.RYS.QP.GPSGVAS.P.R.VHM.LEEM.VPRKM.
Retrocopy MFVVCLTSQLLKAVPWAGCSASWPVFGVLGRHDCRSRYSTQPTGPSGVASFPGRWVHM*LEEMRVPRKMS

Parental  VSPLENWLTVRYLLPRLDAGAPEIVSPAQVYECPP-SQVGEGFEQGGKDVWDAPQIQCKNVLKIRRRKMN
          .SPLE.WLTV.Y.LPRLDAG.P..VS.AQ.YECPP.SQVGEG.EQ.GK.VWDAPQIQCKNVLKI.R.K.N
Retrocopy ISPLEGWLTVHYPLPRLDAGTPGTVSLAQLYECPP<SQVGEGVEQSGKEVWDAPQIQCKNVLKIHRQKWN

Parental  HHKYRKLVKRTRFLRRKVREGRLRRKQIRFERDLRRIWLKAGLKEAP
          HHK..KLVKRT..L..KVREG.L.RKQ...ER.LR.IW..AGLKEAP
Retrocopy HHK*HKLVKRTWYLWQKVREGHLNRKQMKLERHLRCIWREAGLKEAP

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_1186 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1186 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000034618	1 retrocopy	retro_cjac_1981,
Myotis lucifugus	ENSMLUG00000004317	1 retrocopy	retro_mluc_81,
Tursiops truncatus	ENSTTRG00000017044	1 retrocopy	retro_ttru_1186 ,