RetrogeneDB ID: retro_meug_548

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold134640:4322..4943(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HAAO
• Ensembl ID: ENSMEUG00000004160
• Aliases: None
• Description: 3-hydroxyanthranilate 3,4-dioxygenase [Source:HGNC Symbol;Acc:4796]

Sequence

>retro_meug_548
CTCTTTTTCCAGATTGAAGGTCACATGGTTCATAAGATCTTGGAGCAAGGTCAGCACCAAGATGTGCTCATCTGCCAGGG
GGAGATATTTCTCCTGCCTGCTGGTATTCCCCATTCCCTGCAGAGGTTTGCCAACACTGTGGGGCAGGTCATGGAGTGAG
AAAGACAGAAGACAGAGGTAGATGGGCTCAGATACTATGTTGGAGACACAACAAATGTCCTTTTGGAGAAGTGGTTCTAC
TATCAGGATCTCGGCACGCAACTCGCACCAATCATCCGGGAGGTTTTCAACTCTGAACAGTCCAAGACAGGAAAACCTCA
CCCAGACCAGCTGCTCCAAGAGCTACCCTTCCCCCTGGGCACAAGGGCTGTCATGGAGCCACTGGCCCTTCAGCGATGAT
TGGCCAACCATTCTGTGGAGCTACAGGCAGGGAGTACCCTCAGCCTATTTGGAGACATGTATGAGACACAGGTGACAGTC
TATGGATCTGGCAGCAGCAGAGGTCCTAAACTGGATGTGGACGTGTGATTTTGGCATCCAGAAGGGTCTTCAGTGGTGAC
CATTGGAGGACAGAACCTAAGCCTGGCACAAGATGATGGCCTCTTTGTGCCCACTGGGAGT

Alignment

ORF - retro_meug_548 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.61 %
• Parental protein coverage: 72.38 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LFFQIKGHMVLKILEKGQHRDVPIHQGEIFLLPAGIPHSPQRFANTVGLVIERERLKTEVDGLRYYVGDT
          LFFQI.GHMV.KILE.GQH.DV.I.QGEIFLLPAGIPHS.QRFANTVG.V.E.ER.KTEVDGLRYYVGDT
Retrocopy LFFQIEGHMVHKILEQGQHQDVLICQGEIFLLPAGIPHSLQRFANTVGQVME*ERQKTEVDGLRYYVGDT

Parental  TNVLFEKWFYCEDLGTQLAPIIQEFFNSEQYKTGKPHPDQLLQEPPFPLSTRAVMEPLVLQRWLADHRVE
          TNVL.EKWFY..DLGTQLAPII.E.FNSEQ.KTGKPHPDQLLQE.PFPL.TRAVMEPL.LQR.LA.H.VE
Retrocopy TNVLLEKWFYYQDLGTQLAPIIREVFNSEQSKTGKPHPDQLLQELPFPLGTRAVMEPLALQR*LANHSVE

Parental  LQAGSTLSLFGDTYQTQVTVYGSGSSKGPKLDVDVWFWQLEGSSMMTIGGQNLSLAQEDSLLVPKGT
          LQAGSTLSLFGD.Y.TQVTVYGSGSS.GPKLDVDV.FW..EGSS..TIGGQNLSLAQ.D.L.VP.G.
Retrocopy LQAGSTLSLFGDMYETQVTVYGSGSSRGPKLDVDV*FWHPEGSSVVTIGGQNLSLAQDDGLFVPTGS

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_548 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_548 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	ENSMEUG00000004160	1 retrocopy	retro_meug_548 ,