RetrogeneDB ID: retro_ttru_932

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_715:665131..666625(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTTRG00000011785
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ALDH1A2
• Ensembl ID: ENSTTRG00000002361
• Aliases: None
• Description: aldehyde dehydrogenase 1 family, member A2 [Source:HGNC Symbol;Acc:15472]

Sequence

>retro_ttru_932
TCCTCAGCAGCAGCCCTCCCCAGCCCCATCCTGAACCCTGACATCCGCTACAACCAGCTGTTCATCAACAATGAGTGGCA
AGATGCGGTCAGCAAGAAGACCTTCCCAACAGTCAACCCTGCCACGGGGGAGGTCATCGGCCACGTGGCTGAGGGGGACC
GGGCTGACGTGGATCGGGCGGTGAAAGCAGCCCGGGAGGCCTTCCAGCTGGGGTCTCCATGGCGCCGGATGGATGCCTCA
GAGCGGGGCCGGCTGCTGAACCGCCTGGCTGACCTAGTGGAGCGGGATCGTGTCTACTTGGCCTCACTGGAGACCCTGGA
CAATGGGAAGCCTTTCCAGGAGTCTTATTTCTTGGACCTGGATGAGGTCATCAAGGTATACCGGTACTTTGCTGGCTGGG
CTGACAAGTGGCATGGCAAGACCATCCCCATGGATGGCGAGCATTTCTGCTTCACCCTGCACGAGCCTATTGGCGTCTGT
GGCCAGATAATCCCGTGGAACTTCCCCTTGGTCATGCAGGGCTGGAAGCTGGCCCCGGCACTTGCCACGGGCAACACTGT
GGTCATGAAGGTGGCAGAGCAGACCCCCCTTTCTGCCCTGTACTTGGCCTCCCTCGTCAAAGAGGCGGGCTTTCCCCCTG
GGGTGGTAAACATCGTCACAGGCTATGGCCCAACAGCAGGAGCGGCCATTGCCCATCACATGGATATCGACAAAGTTGCC
TTCACTGGCTCCACCGAGGTGGGCCACCTGATCCAGAAGGCGGCCGGCGAGTCCAACCTCAAGAGAGTCACCCTGGAGCT
GGGTGGGAAGAGCCCGAGCATTGTGTTGGCCGATGCCGACATGGACCACGCCGTGGAGCAGTGCCACGAAGCCCTGTTCT
TCAACATGGGCCAGTGCTGCTGTGCCGGTTCCCGGACCTTCGTTGAAGAATCCATCTATGATGAGTTTCTCGAGAGAACT
GTGGAAAAAGCTAAGCAGAGGAAAGTTGGGAACCCCTTTGAGCTGGACACCCAGCAGGGGCCCCAAGTGGACAAGGAACA
GTTTGAACGAATCCTGGGCTACATCCAGCTTGGCTAGAAGGAGGGGGCAAAACTTCTGTGCGGTGGGGAGCGTCTTGGAG
AGCGAGGCTTCTTCATCAAGCCCACGGTCTTTGGTGGTGTGCAGGATGACATGAGGATTGCCAAGGAAGAGATCTTCGGG
CCTGTGCAGCCTCTGTTCAAGTTCAGGAAGGTGGAGGAGGTGGTGGAGAGGGCCAACAGCACCAGGTACGGCTTGGCTGC
TGCTGTGTTCACCCGGGACCTGGACAAAGCCATGTACTTCACACAGGCGCTCCAAGCTGGGACGGTGTGGGTAAACACCT
ACAACGTTGTCACCTGCCACACGCCATTTGGAGGCTTTAAGGAATCTGGCAATGGGAGGGAGCTGGGGGAGGATGGGCTT
AAGGCCTACACAGAGGTGAAGACAGTCACCATCAAGGTTCCTCAGAAGAACTCG

Alignment

ORF - retro_ttru_932 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.66 %
• Parental protein coverage: 96.14 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ASLHLLPSPTPNLEIKYTKIFINNEWQNSESGRVFPVYNPATGEQVCEVQEADKADIDKAVQAARLAFSL
          .S...LPSP..N..I.Y...FINNEWQ...S...FP..NPATGE....V.E.D.AD.D.AV.AAR.AF.L
Retrocopy SSAAALPSPILNPDIRYNQLFINNEWQDAVSKKTFPTVNPATGEVIGHVAEGDRADVDRAVKAAREAFQL

Parental  GSVWRRMDASERGRLLDKLADLVERDRAVLATMESLNGGKPYLQAFYVDLQGVIKTLRYXXXXXXXXXXX
          GS.WRRMDASERGRLL..LADLVERDR..LA..E.L..GKP.......DL..VIK..RY...........
Retrocopy GSPWRRMDASERGRLLNRLADLVERDRVYLASLETLDNGKPFQESYFLDLDEVIKVYRYFAGWADKWHGK

Parental  XXXVDGDYFTFTRHEPVGVCGQIIPWNFPLLMFAWKIAPALCCGNTVVIKPAEQTPLSALYMGALIKEAG
          ....DG..F.FT.HEP.GVCGQIIPWNFPL.M..WK.APAL..GNTVV.K.AEQTPLSALY...L.KEAG
Retrocopy TIPMDGEHFCFTLHEPIGVCGQIIPWNFPLVMQGWKLAPALATGNTVVMKVAEQTPLSALYLASLVKEAG

Parental  FPPGVINILPGYGPTAGAAIASHVGIDKIAFTGSTEVGKLIQEAAGRSNLKRVTLELGGKSPNIIFADAD
          FPPGV.NI..GYGPTAGAAIA.H..IDK.AFTGSTEVG.LIQ.AAG.SNLKRVTLELGGKSP.I..ADAD
Retrocopy FPPGVVNIVTGYGPTAGAAIAHHMDIDKVAFTGSTEVGHLIQKAAGESNLKRVTLELGGKSPSIVLADAD

Parental  LDYAVEQAHQGVFFNQGQCCTAGSRIFVEESIYEEFVRRSVERAKRRIVGSPFDPTTEQGPQIDKKQYNR
          .D.AVEQ.H...FFN.GQCC.AGSR.FVEESIY.EF..R.VE.AK.R.VG.PF...T.QGPQ.DK.Q..R
Retrocopy MDHAVEQCHEALFFNMGQCCCAGSRTFVEESIYDEFLERTVEKAKQRKVGNPFELDTQQGPQVDKEQFER

Parental  ILELIQSGVAEGAKLECGGKGLGRKGFFIEPTVFSNVTDDMRIAKEEIFGPVQEILRFKTMDEVIERANN
          IL..IQ.G..EGAKL.CGG..LG..GFFI.PTVF..V.DDMRIAKEEIFGPVQ....F....EV.ERAN.
Retrocopy ILGYIQLG*KEGAKLLCGGERLGERGFFIKPTVFGGVQDDMRIAKEEIFGPVQPLFKFRKVEEVVERANS

Parental  SDFGLVAAVFTNDINKALTVSSAMQAGTVWINCYNALNAQSPFGGFKMSGNGREMGEFGLREYSEVKTVT
          ...GL.AAVFT.D..KA.....A.QAGTVW.N.YN......PFGGFK.SGNGRE.GE.GL..Y.EVKTVT
Retrocopy TRYGLAAAVFTRDLDKAMYFTQALQAGTVWVNTYNVVTCHTPFGGFKESGNGRELGEDGLKAYTEVKTVT

Parental  VKIPQKNS
          .K.PQKNS
Retrocopy IKVPQKNS

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_932 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_932 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006418	1 retrocopy	retro_chof_1106,
Erinaceus europaeus	ENSEEUG00000012262	1 retrocopy	retro_eeur_15,
Monodelphis domestica	ENSMODG00000008641	1 retrocopy	retro_mdom_254,
Pan troglodytes	ENSPTRG00000007113	1 retrocopy	retro_ptro_118,
Sorex araneus	ENSSARG00000012720	1 retrocopy	retro_sara_40,
Sarcophilus harrisii	ENSSHAG00000012217	1 retrocopy	retro_shar_111,
Tarsius syrichta	ENSTSYG00000004549	1 retrocopy	retro_tsyr_8,
Tursiops truncatus	ENSTTRG00000002361	1 retrocopy	retro_ttru_932 ,