RetrogeneDB ID: retro_meug_881

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold218844:180..911(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SPSB3
• Ensembl ID: ENSMEUG00000004668
• Aliases: None
• Description: splA/ryanodine receptor domain and SOCS box containing 3 [Source:HGNC Symbol;Acc:30629]

Sequence

>retro_meug_881
TTTGATTGGGTTTGGGATGATCTAAACAAATCAACAGCTACCCTGCTAAGTTGTGACAACTGCAAAATCAATTTTCACAT
GGAATATAGCTGTAGCACAACAGACATATGAGGGAACAAGGAACTATGTGAAGGGCAGCACTTTTGGGAGATTAAGATGG
ACTTCTCCAGGCACTGATATGATGGTTGGCATTGGAACATCAGATGTAAATCTGGTGAAGTACTGCCACATGTTCTGTAG
CTTGCTGGGCAAGGATGAAGATAGGTGGAGCCTCTCTTACACAGGACTTCTCCATCACTAGGGTGACAAGATGAGGTTCT
CATCACAATTTGGCCAGGACTCCATCATTGGGGTTCACTTAGACACTTGGCATGGGACACTGATCTTGTTCAAAAACAGG
AACTTCGTAGGAGTTGCCTCCACCAAACTGGAGAGCAAGAAATTCTGTCCCATGTTTGGCTCCACTGCCATCAAGGGCAG
CATGAAGGTGATCCATTCCTATGCTAGTCTCACTTCCCAGCAGTATGTGCTGCTATCACCTGTGTCAACTGCTACCTGAC
TCTGGGGACACACTGGAAGGATTGCTTCTGCCACCTGACCTCAAACAGGTGTTGCAAAACAAAATGTGCTGGGTTCTGAG
CATGAACTGTAACTCCCTGCCATCAACATCACCCAAGGTGGCATCATGCTCAGGAAGCCCAGAGGCCAAGTCATGTCAGA
GGAAGAGGTGT

Alignment

ORF - retro_meug_881 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.65 %
• Parental protein coverage: 73.21 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  FDWVWDDLNKSTATLLSCDNRKVNFHMEYSCGTAAIRGNKELCEGQHFWEIKM-TSPVYGTDMMVGIGTS
          FDWVWDDLNKSTATLLSCDN.K.NFHMEYSC.T..I.GNKELCEGQHFWEIKM.TSP..GTDMMVGIGTS
Retrocopy FDWVWDDLNKSTATLLSCDNCKINFHMEYSCSTTDI*GNKELCEGQHFWEIKM>TSP--GTDMMVGIGTS

Parental  DVNLDKYRHTFCSLLGKDEDSWGLSYTGLLHHKGDKMSFSSRFGQGSIIGVHLDTWHGTLTFFKNRKCIG
          DVNL.KY.H.FCSLLGKDED.W.LSYTGLLHH.GDKM.FSS.FGQ.SIIGVHLDTWHGTL..FKNR...G
Retrocopy DVNLVKYCHMFCSLLGKDEDRWSLSYTGLLHH*GDKMRFSSQFGQDSIIGVHLDTWHGTLILFKNRNFVG

Parental  VAATKLQNKKFYPMVCSTAAKSSMKVIRSCASLTSLQYL-CCYRLRQLLPDSGDTLEGLPLPPGLKQVLH
          VA.TKL..KKF.PM..STA.K.SMKVI.S.ASLTS.QY..C.Y.L.QLLPDSGDTLEGL.LPP.LKQVL.
Retrocopy VASTKLESKKFCPMFGSTAIKGSMKVIHSYASLTSQQYV>C-YHLCQLLPDSGDTLEGLLLPPDLKQVLQ

Parental  NKLGWVLSMNCNPLPSPSPKVAACSGSPEAKPCQRKRC
          NK..WVLSMNCN.LPS.SPKVA.CSGSPEAK.CQRKRC
Retrocopy NKMCWVLSMNCNSLPSTSPKVASCSGSPEAKSCQRKRC

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_881 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_881 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000004668	1 retrocopy	retro_meug_881 ,