RetrogeneDB ID: retro_shar_57

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL843148.1:6548..7097(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSHAG00000001074
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSHAG00000014815
• Aliases: None
• Description: None

Sequence

>retro_shar_57
GCCGCGACGGAGGTCGTCGGGGTCACGGCCCAGGTCGCGTTCCCGGCGGAAGACGAGGACTCCGTCTCGAACCAGCTGAC
CCCCTACCACACCCACTGGGTGGGACACTCCAAGAACCTGGTGGAACTCGCGCAGCAGGTGCAGAAGGCGGACGAATTCA
TCGAAGCCAATGCCACCAACAAGCTGATAGTGATCGCTCAGCAAATCAGCCACCTGCAAACCCAGGCCAGCAAGATACTG
GAAGACGCCCAAAGGGACGCCGAGCTGCACCATGCCGCTTGCAACATGGTGAAGAAGCCTGGAAACATCTACTACCTCTA
CAAGCGGGACAACGGGCAGAAATACTTCTCCATTATTTCGCCAAAGGAGTGGGGGCCGAGCTGTCCCCATGACTTTCTCG
GCGCCTACAAGCTCCAGCACGATCTCTCCTGGACTCCCTTCGACAACATCGAGAAACAAGAGGCCGAAATCGGCATCGTG
GACAAGTTTCTGAGCCAGCAGATGGCCCTGCCCCAGTGCACAGAGCCCAACTTCCAGGGCCTCACCTAG

Alignment

ORF - retro_shar_57 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.28 %
• Parental protein coverage: 99.32 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EDLGELAQQVQKADEFIRANATNKLIVIAEQIRHLQTQARKVLEDAQRDAELHHAACNMVKKPGNIYYLY
          ..L.ELAQQVQKADEFI.ANATNKLIVIA.QI.HLQTQA.K.LEDAQRDAELHHAACNMVKKPGNIYYLY
Retrocopy KNLVELAQQVQKADEFIEANATNKLIVIAQQISHLQTQASKILEDAQRDAELHHAACNMVKKPGNIYYLY

Parental  KRDNGQQYFSILSPKEWGASCPHDFLGAYKLQHDLSWTPFDNIGKQDAELGIMDKLLSQQMALPECTEPN
          KRDNGQ.YFSI.SPKEWG.SCPHDFLGAYKLQHDLSWTPFDNI.KQ.AE.GI.DK.LSQQMALP.CTEPN
Retrocopy KRDNGQKYFSIISPKEWGPSCPHDFLGAYKLQHDLSWTPFDNIEKQEAEIGIVDKFLSQQMALPQCTEPN

Parental  FQGLT
          FQGLT
Retrocopy FQGLT

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_57 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.

---

Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000012195	1 retrocopy	retro_fcat_901,
Sarcophilus harrisii	ENSSHAG00000014815	1 retrocopy	retro_shar_57 ,