RetrogeneDB ID: retro_meug_366

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold105970:154..1028(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C9orf72
• Ensembl ID: ENSMEUG00000009026
• Aliases: None
• Description: chromosome 9 open reading frame 72 [Source:HGNC Symbol;Acc:28337]

Sequence

>retro_meug_366
GTTACCAAGACTGAGATCACTTTGAATAGTGATTCACCCTTATTAGCAGCTACTTTTGCATACTGGGACAACATTCTTGT
ACCTAGATTAAAGCACATCTGGGCTCCCAAGACACAACAACTGCTTCTCAGTGATGGGGAAATATCTTTTCTTGCTAACC
ACTCTAAATGAAGAAATCCTTCAGAACACAGAGAGTGGAACCATAGATGTGAAATTTTTGTGTTGTCTCAAAAAGGAGTA
ATTATTGTTTCATTAATCTTTTATGAAAAAAGAAATGGGGTAGGAGCATATATGGACTAACAATAATACTTCCACAAGCT
AAACCCAGTTTCTACCTTCCCCTTCACAGAATATATGTTGATAGTTAAGCACACATCATTCAGAATTGAAGGATGTAAAT
GCATAAGGAGAGGCAAGAAAATGTCCAGAAGATTGTATTAGAAGAAATAGAAAGAATGGAAGATGAGGAACAGATCTTTA
TTCCAGTGCTCACTGGAGAGGTTAATTTTGTAAAGGAACTCCTTTCGTCTATGAAGTCACAGAGTGCTCCTGAGGAAATA
GATATAAGTGATACAGTACTAACTGATGGTGACATTGGGGATAGTTACCATGAAGGTTTCCTGCTCAATGTGATCAGGTC
CCACTTGCATACCTATAGCTGTTCTATATTAGTAGATAATAGTTCAGATAAAGTGAATAAAATAGTGAGGACATTATACC
TTTTTCTGACAACTTTGGAACATAAGTGCTCCAGATTTTGTAGGAATGAGTCTTCATTTAAGTATGACATCTAGTTATTT
GTATAAGGTCTTCTCAAGGATTCAAATAGGAGTTTTGTACTGCCTTCCCATAAGTTATATATAGCCCATACCCC

Alignment

ORF - retro_meug_366 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.74 %
• Parental protein coverage: 62.26 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  VAKTEIPLNGDSPLLAATFAYWDNILGPRVRHIWAPKTQQLLISDGEIT-FLANHTLNGEILRNAESGAI
          V.KTEI.LN.DSPLLAATFAYWDNIL.PR..HIWAPKTQQLL.SDGEI..FL...TLN.EIL.N.ESG.I
Retrocopy VTKTEITLNSDSPLLAATFAYWDNILVPRLKHIWAPKTQQLLLSDGEIS>FLLT-TLNEEILQNTESGTI

Parental  DVKF-FVLSEKGVIIVSLIFDGNWNG-DRSTYGLSIILPQAELSFYLPLHRVCVDRLTHIIRKGRIWMHK
          DVKF.FVLS.KGVIIVSLIF....NG..RS.YGL.IILPQA..SFYLPLHR..VD...HII...R..MHK
Retrocopy DVKF<FVLSQKGVIIVSLIFYEKRNG<GRSIYGLTIILPQAKPSFYLPLHRIYVDS*AHIIQN*RM*MHK

Parental  ERQENVQKIVLEGTERMEDGQSI-IPMLTGEVILVMELLSSMKSHSVPEEIDISDTVLNDDDIGDSCHEG
          ERQENVQKIVLE..ERMED...I.IP.LTGEV..V.ELLSSMKS.S.PEEIDISDTVL.D.DIGDS.HEG
Retrocopy ERQENVQKIVLEEIERMEDEEQIFIPVLTGEVNFVKELLSSMKSQSAPEEIDISDTVLTDGDIGDSYHEG

Parental  FLLNAISSHLQTCGCSIVVGSSADKVNKIVRTLCLFLTPSERKCSRLCRNESSFKYESGLFVQGLLKDST
          FLLN.I.SHL.T..CSI.V..S.DKVNKIVRTL.LFLT..E.KCSR.CRNESSFKY...LFV.GLLKDS.
Retrocopy FLLNVIRSHLHTYSCSILVDNSSDKVNKIVRTLYLFLTTLEHKCSRFCRNESSFKYDI*LFV*GLLKDSN

Parental  GSFVLP-FRQVMYAPYP
          .SFVLP.F..V.Y.PYP
Retrocopy RSFVLP<FP*VIYSPYP

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_366 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_366 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000009026	1 retrocopy	retro_meug_366 ,
Procavia capensis	ENSPCAG00000008676	1 retrocopy	retro_pcap_182,