RetrogeneDB ID: retro_meug_1767

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold57861:4283..4995(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PRKCSH
• Ensembl ID: ENSMEUG00000016696
• Aliases: None
• Description: protein kinase C substrate 80K-H [Source:HGNC Symbol;Acc:9411]

Sequence

>retro_meug_1767
CTGTTGCTGCCACTGCTAAGTGTTGCCACATCTATGGTGAAAGTCAAAAGGCCTCGGGGTTCTCCCTTACCAATCATCAT
TTCTATGACAAATCTAAGCCCTTCACCTACCTGGATGGGTCCTCCACTATCCCCTTCAATCAAGTAAATGAGGACTACTG
TGATTGTCCAGATGGTTCTGATGAACCAGGGACTGCTGCCTGCCCAGAGGGACACTTGCACTGTACCAAGGCTGGCTAGA
AGCCCCACTATATCCCCTCAAGTCATGTCAACGATGGGATCTGTGATTGCTGTGATGCCACAGATGAGCACAATAGTGAT
GTCATCTGTGAGAACACATGCAGGGAAATGGACTGGAAGGAGAAGGAGACTTTGGAACAGATGGCAGAAGTTGCCCGTGA
GGGCTTCCAGCTCAAGATCTTGATCGAAGAAGAAAAGAAGGGCCAGGAGGAAAAGCAGAGCAGACTCCTTGTTTTGCAAG
AGTCAAAAAGGCCCTGGAGGAGCTAGTGGTGATGCTGAGACCTGTGAAGAAAAAAGCAGAGAAACCTGAGAAAGAATTCA
AGGAGCAGCATCACAAGCTGTGGGAAGAGTAGCAGGCAGCAGCCGGGCTGCTTGAGACCAGGAGCAAGCTACCAGCATTT
TCCAGGAGCTAGATGACAATACCAAGTGGGATAATTTCAGTGGCTAAGCTTCAGACTCACCCAGAACTGGAC

Alignment

ORF - retro_meug_1767 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.89 %
• Parental protein coverage: 56.24 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  LLPPLLLPKRCAVEVKRPRG-VSLTNHHFYDKSKPFTCLDGSSTIPFDQVNDDYCDCPDGSDEPGTAACP
          LL.PLL......V.VKRPRG..SLTNHHFYDKSKPFT.LDGSSTIPF.QVN.DYCDCPDGSDEPGTAACP
Retrocopy LLLPLLSVATSMVKVKRPRG<FSLTNHHFYDKSKPFTYLDGSSTIPFNQVNEDYCDCPDGSDEPGTAACP

Parental  EGRFHCTNAGYKPHYIPSSRVNDGICDCCDATDEYNSGVICENTCREMGRKEKETLEQMAEVAREGFRLK
          EG..HCT.AG.KPHYIPSS.VNDGICDCCDATDE.NS.VICENTCREM..KEKETLEQMAEVAREGF.L.
Retrocopy EGHLHCTKAG*KPHYIPSSHVNDGICDCCDATDEHNSDVICENTCREMDWKEKETLEQMAEVAREGFQL-

Parental  KILIEEGKKGQEEKRSRLLSLQES-KKALEEQVAMLRAVKEEAEKPEKEFKERHHRLWEEQQAAA-RAAR
          KILIEE.KKGQEEK.SRLL.LQES.KKALEE.V.MLR.VK..AEKPEKEFKE.HH.LWEE.QAAA.RAA.
Retrocopy KILIEEEKKGQEEKQSRLLVLQES<KKALEELVVMLRPVKKKAEKPEKEFKEQHHKLWEE*QAAA<RAA*

Parental  DQEQAASAFQELDDNT-DGVISVAELQTHPELD
          DQEQA.S.FQELDDNT..G.ISVA.LQTHPELD
Retrocopy DQEQATSIFQELDDNT>SGIISVAKLQTHPELD

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_1767 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1767 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	ENSMEUG00000016696	1 retrocopy	retro_meug_1767 ,