RetrogeneDB ID: retro_meug_977

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold25061:15400..15898(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PLD5
• Ensembl ID: ENSMEUG00000014780
• Aliases: None
• Description: phospholipase D family, member 5 [Source:HGNC Symbol;Acc:26879]

Sequence

>retro_meug_977
ATGAAAGAACCTGGTGTCATCTTTCACAACTGCAACTATCTGGTCTTAGATTTCCAAACGACATTTGTCCTGCGTAGCTC
ATTAAAATACAAGAGCAGAGAGCCTCCAACTTGGTCAGAGAAGTTGTATGGAGTGTATGACAAGCAAAAAAGCATGGCAA
CTTCAGCTGAATGAAACAAAGTCTCAGGCATTTGTGTCGAATTCTCCTAAATAGTCTTTTGCTCTAAAAATAGGAGCTTT
GACATAGATGCCATCTATAGTGTCACTGACGATGCAAAGGACTTGGGTTCATTGCTGTAAGGGATTATCTTCCTGTCACT
AGGACAAGCACCAGAAGAACTTACTGGCCAGATTTGGATGGGAAAAACAAGAGAAGCATTCATTTTAGGAAGAGTTAAAG
TTCGACTCCTAAGTTTCTGGAAAGAAAGAGACCCCCTCATTGAACTTTGTTTCATGTCTAAAAGTATTTGCGCTGAAATT
GCTAACTACAGTTTGAAA

Alignment

ORF - retro_meug_977 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.71 %
• Parental protein coverage: 59.22 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MKELGVIFYNCSCLVLDLQRIFALYSSLRYKSRVPQTWSKRLYGVYDNQKKLQLQLNETK-SQAFVSNSP
          MKE.GVIF.NC..LVLD.Q..F.L.SSL.YKSR.P.TWS..LYGVYD.QK.........K.S...V..S.
Retrocopy MKEPGVIFHNCNYLVLDFQTTFVLRSSLKYKSREPPTWSEKLYGVYDKQKSMATSAE*NKVSGICVEFS*

Parental  KVFCPKNRSFDIDAIYSVIDDAKEFV-FIAVMDYLPVSNTSTKRTYWPDLDGK-IREALVLRRVKVRLLI
          .VFC.KNRSFDIDAIYSV.DDAK....FIAV.DYLPV..TST.RTYWPDLDGK..REA..L.RVKVRLL.
Retrocopy IVFCSKNRSFDIDAIYSVTDDAKDLG<FIAVRDYLPVTRTSTRRTYWPDLDGK>TREAFILGRVKVRLL-

Parental  SFWKETDPLTFNFVSSLKAICTEIANCSLK
          SFWKE.DPL........K.IC.EIAN.SLK
Retrocopy SFWKERDPL-IELCFMSKSICAEIANYSLK

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_977 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_977 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000014780	2 retrocopies	retro_meug_1696, retro_meug_977 ,