RetrogeneDB ID: retro_meug_1696

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold53377:10366..10863(-)
• 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_1696
ATGAAAGAACTTGGTGTCATCTTTTACAACTACAACTAGCTGGTCTTAGACTTCCAAACAACATTTGTCCTGTATAGCTG
ATTAAAATACAAGAGCAGAGCGCCTCCAACTTGGTCAAAGGAGTTGTATGGAGTGTATGACAAGCAAAAAAACATGGCAA
CTTCAGCTGAATGAAACAAAGTCTCAGGCATTTGTGTCGAATTCTCCTACATAGTCTGTTGCTCTAGAAATAGGAGCTTC
GACAGAGATGCCATCTATAGTGTCACTGACGATGCGAAGGACTTGGGTTCATTGCTGTAAGGGATTATCTCCCTGGACTT
ACACAAGCACCAGAAGAACTTACTGGCCACATTTGGATGGGAAAAACAAGAGAAGCATTCGTTTTAGGAAGAGTTGAAGT
TCGACTCGTCAGTTTCTGGAAAGAAACAGATCCCCTCATTGAACTTTATTTCATATCTAAAAGTATTTGCACTGAAATTG
CTAACTACAGTTTGAAA

Alignment

ORF - retro_meug_1696 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.94 %
• Parental protein coverage: 59.22 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  MKELGVIFYNCSCLVLDLQRIFALYSSLRYKSRVPQTWSKRLYGVYDNQKKL-QLQLNETKSQAFVSNSP
          MKELGVIFYN...LVLD.Q..F.LYS.L.YKSR.P.TWSK.LYGVYD.QK...QLQLNETKSQAFVSNSP
Retrocopy MKELGVIFYNYN*LVLDFQTTFVLYS*LKYKSRAPPTWSKELYGVYDKQKNM>QLQLNETKSQAFVSNSP

Parental  K-VFC-PKNRSFDIDAIYSVIDDAKE-FVFIAVMDYL-PVSNTSTKRTYWPDLD-GKIREALVLRRVKVR
          ....C...NRSFD.DAIYSV.DDAK....FIAV.DYL.P...TST.RTYWP.LD.GK.REA.VL.RV.VR
Retrocopy T<IVCCSRNRSFDRDAIYSVTDDAKD<LGFIAVRDYL<PWTYTSTRRTYWPHLD>GKTREAFVLGRVEVR

Parental  LLISFWKETDPLTFNFVSSLKAICTEIANCSLK
          .L.SFWKETDPL......S.K.ICTEIAN.SLK
Retrocopy -LVSFWKETDPLIELYFIS-KSICTEIANYSLK

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_1696 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1696 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,