RetrogeneDB ID: retro_meug_756

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold178310:335..1171(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TALDO1
• Ensembl ID: ENSMEUG00000000841
• Aliases: None
• Description: transaldolase 1 [Source:HGNC Symbol;Acc:11559]

Sequence

>retro_meug_756
ATTGATGAGTATAAGCCCCAGGACTCCATCTCCAATCCCTCACTGATCCTGGCTGTGGCCCAGATGCCAACCTACCAGGG
TCTAGTGTAAGATGACATTGCATATGGAAAAAGCTCAGTGGGACCCAGAACCAACAGATCCAGAATGCCAGGGACAAACT
GTTGTGTTATTTGGGCCTGAGATTCTGAAGATTCCAGGCTGGGTATCCACAGAAGTCAATGCCTGATTATCCTTTGACAA
GAAAGAAATGGTCCAAAGGGTCCTGTGCCTCACTGACCTCTACAAAGAAGCTGAAGTCAGCAAAGAGCCTATTCTCATCA
AGCTGGCTTCCACCTGGAAAGGAACTCAGGTTGGAAAGGTCCTGGAGGAGCAGCATGGTGTCCACTGTGACATGAGTCTG
CTATTCTCCTTTGCTTAAGCTGTGGTCTGCAGCAAGCCTGTGTGACCCTCATCTACTCATTTGTTGGGGCATCCTGGACT
GGCATGTGGCAAACATAGATAAGAAGGCCTATGAACCCCAGGAGGACCCAGGCATAAAGAGTGTCACCTACATCTAGAAC
TACCACAAGAAGTTTGGCTACAACATGATTGTCATGGACTCATCCCTCCACAATGTGGGTGAGATCAAGGCCCTTATGGG
CTGTGACTATCTCACCATCTCTCCCAAGCTCCCAGGGGAGCTGCTCAAAGAGACCTCCAAGGTCACCCCTAAGCTCAGCA
TTCAAGAAACCCAGGGCAGCAGCCTCAAGAAGATTGACCTAGATGAGAGGGCTTTTCTGTGGCAGCACAATAAGGACCAT
ATGGTGGTGGAGAAGCTGTCTGATGGCATCTGCAAG

Alignment

ORF - retro_meug_756 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.68 %
• Parental protein coverage: 92.43 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  IEEYKPQDATTNPSLILAAAQMPAYQDLVEDAVAYGK-KAGGSQDQQIQNASDKLF-VLFGAEILKKIPG
          I.EYKPQD...NPSLILA.AQMP.YQ.LV.D..AYGK.K..G.Q.QQIQNA.DKL..VLFG.EILK.IPG
Retrocopy IDEYKPQDSISNPSLILAVAQMPTYQGLV*DDIAYGK<KLSGTQNQQIQNARDKLL<VLFGPEILK-IPG

Parental  RVSTEVDARLSFDKEEMVQRALRLIDLYKEAGISKERILIKLASTWEGIQAGKVLEEEHGVHCNMTLLFS
          .VSTEV.A.LSFDK.EMVQR.L.L.DLYKEA..SKE.ILIKLASTW.G.Q.GKVLEE.HGVHC.M.LLFS
Retrocopy WVSTEVNA*LSFDKKEMVQRVLCLTDLYKEAEVSKEPILIKLASTWKGTQVGKVLEEQHGVHCDMSLLFS

Parental  FAQAVACA-EAGVTLISPFVGR-ILDWHVANTDKKSYEPQEDPGVKSVTKIYNYYKKFGYKTIVMGASFR
          FA.AV.C...A.VTLI..FVG..ILDWHVAN.DKK.YEPQEDPG.KSVT.I.NY.KKFGY..IVM..S..
Retrocopy FA*AVVCS<QACVTLIYSFVGA<ILDWHVANIDKKAYEPQEDPGIKSVTYI*NYHKKFGYNMIVMDSSLH

Parental  NVGEIKALTGCDYLTISPKLLGELLKETTKLTPVLSVQEAQASSLEKVHLDEKAFRWQHNQDQMAVEKLS
          NVGEIKAL.GCDYLTISPKL.GELLKET.K.TP.LS.QE.Q.SSL.K..LDE.AF.WQHN.D.M.VEKLS
Retrocopy NVGEIKALMGCDYLTISPKLPGELLKETSKVTPKLSIQETQGSSLKKIDLDERAFLWQHNKDHMVVEKLS

Parental  DGIRK
          DGI.K
Retrocopy DGICK

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_756 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_756 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000010336	1 retrocopy	retro_btau_455,
Macropus eugenii	ENSMEUG00000000841	1 retrocopy	retro_meug_756 ,
Mus musculus	ENSMUSG00000025503	2 retrocopies	retro_mmus_645, retro_mmus_667,
Rattus norvegicus	ENSRNOG00000018367	1 retrocopy	retro_rnor_2661,
Xenopus tropicalis	ENSXETG00000001671	1 retrocopy	retro_xtro_16,