RetrogeneDB ID: retro_meug_1463

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold4141:21019..21655(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IMP4
• Ensembl ID: ENSMEUG00000008058
• Aliases: None
• Description: IMP4, U3 small nucleolar ribonucleoprotein, homolog (yeast) [Source:HGNC Symbol;Acc:30856]

Sequence

>retro_meug_1463
AAGATGACAAATACCAAAGACCCCAGAATCATGATCACCACATCTTGAGATCCCAGCTCTCAGCTCAATATGTTTGTCAA
GTAACTGAACCTGATATTCCCTGGTGCTACCAGAATGAACCAGAATCAACATGAAATGGGTGCTCTTGTTCATGCTTGTA
AAGCCAATGGAGTCACAGATCTGTTGCTGGTGCATGAGCACAGAGGGACACCAGTTGACCTCATTGTGAGCCACTTGCCC
TTTGGGCCTACTGCATATTTCACACTGTGTAATGTGATGATGCGGCCTGACATTCCTGACCTTGGTACAGCCTCAGAAGC
TCTTCCCCACCTTATCTTCCAAGGTTTCTCTTCCCACCTTAGACAGCGAGTCTCAAATATCCTCCAATACCTTTTCCCCG
TACCCAAGGATGATAGCCACTGAGTCATTACCTTTGCCAACCAGTATGACTATATTTCTTTTCAGCGTCATGTGTACTGG
AAGCCAGATCACAGCACAGTGGAGCTGACAGAAGTGGGGCCCAGATTTGAGATGAAATTGTACACGATCCACCTAGGCAC
ACTAGAGTACGAAGCCACAGCAGATGTGGAGTGGCACTGGCACCATGCAGCCCGAAAGAGGACCTTCCTCAGTGTC

Alignment

ORF - retro_meug_1463 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.72 %
• Parental protein coverage: 74.14 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RWAGVEDPRIMITTSRDPSSRLKMFVKELKLIFPGATRMNRGRHEMGALVHACKANGVTDLLLVHEHRGT
          ......DPRIMITTS.DPSS.L.MFVK.L.LIFPGATRMN...HEMGALVHACKANGVTDLLLVHEHRGT
Retrocopy KMTNTKDPRIMITTS*DPSSQLNMFVK*LNLIFPGATRMNQNQHEMGALVHACKANGVTDLLLVHEHRGT

Parental  PVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLGTASEALPHLIFHGFSSHLGQRVSNILRYLFPVPKDDSH
          PV.LIVSHLPFGPTAYFTLCNV.MR.DIPDLGTASEALPHLIF.GFSSHL.QRVSNIL.YLFPVPKDDSH
Retrocopy PVDLIVSHLPFGPTAYFTLCNVMMRPDIPDLGTASEALPHLIFQGFSSHLRQRVSNILQYLFPVPKDDSH

Parental  RVITFANQDDYISFRHHVYRKPDHNTVELTEVGPRFEMKLYMIRLGTLEHEATADVEWRWHPYTHTARKR
          .VITFANQ.DYISF..HVY.KPDH.TVELTEVGPRFEMKLY.I.LGTLE.EATADVEW.WH...H.ARKR
Retrocopy *VITFANQYDYISFQRHVYWKPDHSTVELTEVGPRFEMKLYTIHLGTLEYEATADVEWHWH---HAARKR

Parental  TFLSI
          TFLS.
Retrocopy TFLSV

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_1463 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1463 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000016200	2 retrocopies	retro_etel_1844, retro_etel_73,
Macropus eugenii	ENSMEUG00000008058	1 retrocopy	retro_meug_1463 ,
Sarcophilus harrisii	ENSSHAG00000008267	1 retrocopy	retro_shar_48,