RetrogeneDB ID: retro_shar_421

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL841961.1:76851..77139(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DYNLRB2
• Ensembl ID: ENSSHAG00000002755
• Aliases: None
• Description: dynein, light chain, roadblock-type 2 [Source:HGNC Symbol;Acc:15467]

Sequence

>retro_shar_421
ATGGCTGAGGTAGAAGAAACCCTAGAATGAATCCAGAGCCAGAAGGGAGTACAAGGGATCATTGTTGTCAGTGCAGAAAG
CATTACAATTAAAAATATCATGGACAACTCCACCACCATGCAATACACCAACCTCATACACAGCTTCATCCTGAAGGTTT
GGGGTAGTGTGTGGGACATTGACCCCCAAAATGATCTCACATTTCTGTGCATTTGCACCAAAACAAATGAGATCATGGTT
GCTCCAGATAAAGATTATTTCCTGATTGTTGTCCAAAATCCATCAGAG

Alignment

ORF - retro_shar_421 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.46 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAEVEETLKRIQNHKGVIGTMVVNAEGIPIRTTLDNSTTVQYAGLLHQLTMKAKSTVRDIDPQNDLTFLR
          MAEVEETL..IQ..KGV.G..VV.AE.I.I....DNSTT.QY..L.H....K....V.DIDPQNDLTFL.
Retrocopy MAEVEETLE*IQSQKGVQGIIVVSAESITIKNIMDNSTTMQYTNLIHSFILKVWGSVWDIDPQNDLTFLC

Parental  IRSKKHEVMVAPDKEYLLIVIQNPTE
          I..K..E.MVAPDK.Y.LIV.QNP.E
Retrocopy ICTKTNEIMVAPDKDYFLIVVQNPSE

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_421 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000020024	1 retrocopy	retro_cfam_575,
Erinaceus europaeus	ENSEEUG00000013344	2 retrocopies	retro_eeur_134, retro_eeur_552,
Sarcophilus harrisii	ENSSHAG00000002755	1 retrocopy	retro_shar_421 ,