RetrogeneDB ID: retro_meug_1574

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold46570:5451..6854(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMEUG00000008374
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ALDH1A3
• Ensembl ID: ENSMEUG00000002553
• Aliases: None
• Description: aldehyde dehydrogenase 1 family, member A3 [Source:HGNC Symbol;Acc:409]

Sequence

>retro_meug_1574
ATACCTACCCCACTCACCAACTGCAAAATTCAATACACTAAGATATTTATAAACAATGAATGGCATGATTCAGTGAGTGG
CAAGAAATTCCCAGTCATTAACCCTGCAACTAAAGAAAAAATTTGCGATGTAGAAGGAGATAAGGCAGATGTGGACAAGG
CAATGAAGGCAGCAAGGGAGGCTTTTCACCTCGGGTCCCCATGGAGGACAATGGATGCTTCAGAGAGAGGTCGGCTCCTG
AACGAACTGGCTGATTTAACTGAAAGAGATCGTCTGCTCTTGGCAACAATAGAATCAGTGAAGCCTGGAAAAGTCTTCCC
CACAGCCTATAGGATGGATTTAGTCTCCTCTGTGAATGCTTTCCACTATTATGCAAGCTGGACTGATAAGGTGCAGGCTC
GTACAATCCCAAATGATGCAAAGTTTTTCTCATATACAAGACATGAACCTATTGGTGTTTGTGGACAAATCATTCCTTGG
AATTTCCCTTTCATTACGTTTATGTGGAAAATTGCACCTGCCCTTTGCTGGGGAAACACCGCAATTGTCAAGCCAGCAGA
ACAGACTCCACTAACTGACTTTATGTAGCATCGCTAACTAAAGAGGCAGGATTTCCACCAGGAGTAGTGAATATTGTGCC
TGGTTATGCACACATGGCAGGAGCAGCCATTTCTTCTCACATGGATGTAGATAAAGTAGCCTTCACAGGGTCCACAGAGG
TTGGGTTGCTATTTAAGGAGGCTGCTGGGAAGAGCAACCTAAAGAGGGTTTCACTGGAGCTGGGAGGAAAGAGCCCTTGC
TTTGTATTTGCTGATGCTGACATGGATAATGCTGTGGAATCCGCACACATTGGGCTGTTTTTCCACCAAGGCCAGTGCTG
CCCTGCTGCATCGAGGCTTTTTGTGGAAGAGTCCATTTACAATGAGTTTGTTCGGACAGGTGTAGAGCATGCCCAGAAAT
ACACACTGGGGAATCCTCTGATCCCAGGAGTACAGCAAGGCCCTCAGATTGATAAAGAGTGGTACACCAAAATATTTCAC
CTCATTGAGAGTAGGAAGAAGAAAGGAGCCAAATTGGAATGGGGAGGAGGACCACTGGGAGACAAAGGTTACTTCATTCA
GCCCACAGTCTTCTCCAACGCTACTGGTGAGATGTGCATCACCAAAGAGGAGATTTTCAGACCAGTCCAACAAATCATGA
AGCTTAAGGCTATCGATGAAGTAGTCAAGAGGGCCAACAACACTCACTATGGCTTAGCAGCAGGGATTTTTAGGAGAGAC
CTTGATAAAGTCTTGACAGTCTTTTCTGCCCTTCAACCTGGAACAGTCTGGGTGAATTGCTGTGGTATGGTTTCTCCTCA
GACCCCTTTTAGTGCATTCAAGATGTCTGGAAATGGGAGAGAA

Alignment

ORF - retro_meug_1574 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.26 %
• Parental protein coverage: 96.1 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LPHPIRNLEVKHTKIFINNEWHESKSGKKFPTYNPSTVEKICEVEEGDKDIDKAVEAAKAAFQRGSLWRQ
          .P.P..N.....TKIFINNEWH.S.SGKKFP..NP.T.EKIC.VE....D.DKA..AA..AF..GS.WR.
Retrocopy IPTPLTNCKIQYTKIFINNEWHDSVSGKKFPVINPATKEKICDVEGDKADVDKAMKAAREAFHLGSPWRT

Parental  MDALSRGRLLHKLADLMERDRIILATLETMDTGKPFLHAFFIDLEGCIKTLRYYAGWADKIHGRTIPADE
          MDA..RGRLL..LADL.ERDR..LAT.E....GK.F..A...DL........YYA.W.DK...RTIP.D.
Retrocopy MDASERGRLLNELADLTERDRLLLATIESVKPGKVFPTAYRMDLVSSVNAFHYYASWTDKVQARTIPNDA

Parental  NVVCFTRHEPIGVCGAIIPWNFPLMLLIWKMAPALCCGNTIVIKPAEQTPLTS-LYLGSLIKEVGFPPGV
          .....TRHEPIGVCG.IIPWNFP.....WK.APALC.GNT...KPAEQTPLT..LY..SL.KE.GFPPGV
Retrocopy KFFSYTRHEPIGVCGQIIPWNFPFITFMWKIAPALCWGNTAIVKPAEQTPLTD<LYVASLTKEAGFPPGV

Parental  VNIVPGYGPTAGAAISSHPKIDKIAFTGSTEVGKLIKEAASKSNLKRVTLELGGKNPCIVCADADLDLAV
          VNIVPGY...AGAAISSH...DK.AFTGSTEVG.L.KEAA.KSNLKRV.LELGGK.PC.V.ADAD.D.AV
Retrocopy VNIVPGYAHMAGAAISSHMDVDKVAFTGSTEVGLLFKEAAGKSNLKRVSLELGGKSPCFVFADADMDNAV

Parental  ECAHRGVFFNQGQCCTAASRVFVEEQIYPEFVKRSVEYAKKRLVGDPFDVKTEQGPQIDQKQFDKILDLI
          E.AH.G.FF.QGQCC.AASR.FVEE.IY.EFV...VE.A.K...G.P......QGPQID.....KI..LI
Retrocopy ESAHIGLFFHQGQCCPAASRLFVEESIYNEFVRTGVEHAQKYTLGNPLIPGVQQGPQIDKEWYTKIFHLI

Parental  ESGKKEGAKLEYGGSAMEDRGLFIKPTVFSEVTDNMRIAKEEIFGPVQPIMKFKNIEEVIKRANSIEYGL
          ES.KK.GAKLE.GG....D.G.FI.PTVFS..T..M.I.KEEIF.PVQ.IMK.K.I.EV.KRAN...YGL
Retrocopy ESRKKKGAKLEWGGGPLGDKGYFIQPTVFSNATGEMCITKEEIFRPVQQIMKLKAIDEVVKRANNTHYGL

Parental  TAAVFTKNLDKALKLASALESGTVWINCYNAIYAQAPFGGFKMSGNGRE
          .A..F...LDK.L...SAL..GTVW.NC......Q.PF..FKMSGNGRE
Retrocopy AAGIFRRDLDKVLTVFSALQPGTVWVNCCGMVSPQTPFSAFKMSGNGRE

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_1574 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1574 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000002553	3 retrocopies	retro_meug_1574 , retro_meug_1848, retro_meug_802,
Macropus eugenii	ENSMEUG00000008847	1 retrocopy	retro_meug_354,