RetrogeneDB ID: retro_meug_1623

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold49173:10422..11085(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DDX39B
• Ensembl ID: ENSMEUG00000008264
• Aliases: None
• Description: DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B [Source:HGNC Symbol;Acc:13917]

Sequence

>retro_meug_1623
ATGCATTGAGACGTCCAGGAAATTTTGCGCATGACCCCCCATGAGAAGCAGGTCATGATGTTCAGTGCCACCCTGAGCAA
AGAGATCCACCCTGTCTGCCGCAAGTTCATACAAGACCCAATGGAGATCTTCGTGGATGATGAGATGAAGCTGATGCTGC
ATGGGCTGCAGCAGTACTACGTGAAGCTGGAGGACAATGAGAAGAACCAAAAACTCTTTGACCTCCTGGATGTTCTAGAG
TTCAACCAGGTAGTGATCTTCGTGAAATCTGTGCAGAGCTGCATTACCCTGGCCCAGTTCCTAGTGGAACAGAACTTCCC
AGACGTTGCTATCCATCGTGAGATGCCCCAAGAGAAGTTGTCCCAGTATCAGGAGTTCAAGGATTTCCAGGATAGTATCC
TTATGACTACTAACCTGTTTGGCTGGTGCATGGATATTGAACGAATAAACATCGCCTTCAACTATGACATGCCAGAGGAC
TCAGACACCTACTAACATAGGGTGGCTAGAGCAGGCCGGTTTGATACAAAAGGTTTGGCCATCACATTTGTATCAGATGA
AAATGATGCCAAAATCCTCAGTGACGTCCAGGATCACTTTGAGGTCAACATCAGTGAACTGCCTGATGAGATAGACATTT
CTTCCTACATGGAGCAGACTCAG

Alignment

ORF - retro_meug_1623 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.59 %
• Parental protein coverage: 51.87 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNR
          M..DVQEI.RMTPHEKQVMMFSATLSKEI.PVCRKF.QDPMEIFVDDE.KL.LHGLQQYYVKL.DNEKN.
Retrocopy MH*DVQEILRMTPHEKQVMMFSATLSKEIHPVCRKFIQDPMEIFVDDEMKLMLHGLQQYYVKLEDNEKNQ

Parental  KLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNL
          KLFDLLDVLEFNQVVIFVKSVQ.CI.LAQ.LVEQNFP..AIHR.MPQ.E.LS.YQ.FKDFQ..IL..TNL
Retrocopy KLFDLLDVLEFNQVVIFVKSVQSCITLAQFLVEQNFPDVAIHREMPQ-EKLSQYQEFKDFQDSILMTTNL

Parental  FGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPD
          FG..MDIER.NIAFNYDMPEDSDTY.HRVARAGRF.TKGLAITFVSDENDAKIL.DVQD.FEVNISELPD
Retrocopy FGWCMDIERINIAFNYDMPEDSDTY*HRVARAGRFDTKGLAITFVSDENDAKILSDVQDHFEVNISELPD

Parental  EIDISSYIEQTR
          EIDISSY.EQT.
Retrocopy EIDISSYMEQTQ

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_1623 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1623 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000003152	1 retrocopy	retro_cjac_1461,
Gorilla gorilla	ENSGGOG00000005989	1 retrocopy	retro_ggor_752,
Macropus eugenii	ENSMEUG00000008264	2 retrocopies	retro_meug_1623 , retro_meug_288,
Macaca mulatta	ENSMMUG00000008839	1 retrocopy	retro_mmul_1126,
Nomascus leucogenys	ENSNLEG00000006094	1 retrocopy	retro_nleu_2418,
Pongo abelii	ENSPPYG00000016433	1 retrocopy	retro_pabe_804,