RetrogeneDB ID: retro_meug_1355

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold378382:888..1137(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PDE6D
• Ensembl ID: ENSMEUG00000006427
• Aliases: None
• Description: phosphodiesterase 6D, cGMP-specific, rod, delta [Source:HGNC Symbol;Acc:8788]

Sequence

>retro_meug_1355
TCAGCAGAGCAGATAGACAAATCTCTGGAGCAAAAAAGTCTATTTAAAAGGTAGTGCCTAGAAGAATGGTTTTTCAAATT
TGGCTTCATGATTCTTAATTTCACAAACACCTGGCAATCCTTGATAGAGAAAGTGCCAGAGTCCTGGATGATGCCAGCAA
ACGTCTTAAGTGGGAATGTGATCACAGAGACCAAGTTCTTTGACGACAACCTTCTCATCAACACATCCAGGGAGAGACTT
TTCTACATT

Alignment

ORF - retro_meug_1355 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.81 %
• Parental protein coverage: 81.55 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SAEQMEKFRLEQKVYFKGQCLEEWFFEFGFVIPNSTNTWQSLIEAAPESQMMPANVLTGNVIIETKFFDD
          SAEQ..K..LEQK..FK..CLEEWFF.FGF.I.N.TNTWQSLIE..PES.MMPANVL.GNVI.ETKFFDD
Retrocopy SAEQIDK-SLEQKSLFKR*CLEEWFFKFGFMILNFTNTWQSLIEKVPESWMMPANVLSGNVITETKFFDD

Parental  DLLVSTSRVRLFYV
          .LL..TSR.RLFY.
Retrocopy NLLINTSRERLFYI

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_1355 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1355 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000012101	1 retrocopy	retro_acar_157,
Dasypus novemcinctus	ENSDNOG00000000568	1 retrocopy	retro_dnov_2585,
Felis catus	ENSFCAG00000002232	1 retrocopy	retro_fcat_317,
Macropus eugenii	ENSMEUG00000006427	1 retrocopy	retro_meug_1355 ,
Oryctolagus cuniculus	ENSOCUG00000010403	1 retrocopy	retro_ocun_182,
Pteropus vampyrus	ENSPVAG00000004743	1 retrocopy	retro_pvam_544,
Tursiops truncatus	ENSTTRG00000009165	1 retrocopy	retro_ttru_82,