RetrogeneDB ID: retro_shar_723

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL861617.1:1083713..1083901(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCDC25
• Ensembl ID: ENSSHAG00000018434
• Aliases: None
• Description: coiled-coil domain containing 25 [Source:HGNC Symbol;Acc:25591]

Sequence

>retro_shar_723
ATGGGAAAGGATAAACATGAAAATGAAGATCTAATAAAGCACGGTTGGCCAGAAGATATTTGGCATTATGTTGACAAACT
TTCTTCAGTTCACATATATATTTTGGTTACACCAGGGAGAGGGCAGAAGACATTTCAAAGAAAATGATGATGAACTATGC
ACATGTTGTGAGAGCCAAGAGTATTCAA

Alignment

ORF - retro_shar_723 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.62 %
• Parental protein coverage: 85.14 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MGKDKYENEDLIKYGWPEDIWFHVDKLSSAHVYLRLHKG-ERIEDIPKEVLMDCAHLVKANSIQ
          MGKDK.ENEDLIK.GWPEDIW..VDKLSS.H.Y.....G.ER.EDI.K...M..AH.V.A.SIQ
Retrocopy MGKDKHENEDLIKHGWPEDIWHYVDKLSSVHIYILVTPG<ERAEDISKKMMMNYAHVVRAKSIQ

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Sarcophilus harrisii was not studied using RNA-Seq expression data.

ChIP-Seq

Sarcophilus harrisii was not studied using ChIP-Seq data.

EST

Sarcophilus harrisii was not studied using EST data.

TSS

Sarcophilus harrisii was not studied using FANTOM5 data.

Lab

retro_shar_723 was not experimentally validated.

Homology

Retrocopy orthology:

Sarcophilus harrisii 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Pongo abelii	ENSPPYG00000018468	2 retrocopies	retro_pabe_1364, retro_pabe_477,
Sarcophilus harrisii	ENSSHAG00000018434	1 retrocopy	retro_shar_723 ,