RetrogeneDB ID: retro_shar_517

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL849750.1:707261..707596(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TSTD1
• Ensembl ID: ENSSHAG00000016118
• Aliases: None
• Description: thiosulfate sulfurtransferase (rhodanese)-like domain containing 1 [Source:HGNC Symbol;Acc:35410]

Sequence

>retro_shar_517
GCCCTGGCCATATAGCTCCCAGAGCTCCGCTCCATCCTGGCCACCTACTGGGACTGGGTCCAGTCATTGATGTGAGCTCT
TGGGAGGAGTCAGTGACAGGGACAATCCCCGGGGCACTCAACATCCTGATTTCATAACTGGAGAATGTTCTTTGCATGGA
GCCAGCTGATTCCCAGGCTACATACTTTGCAAAGAAGCCAAGACCAGAAGAAGAGAACCTAGTCTTCCTCTGCCAGACTG
GCAGCAATGAGTGCCATGCCATGCAGACTGCCAGGGAACTTGAATATTTGGGGGCTAATTATGAAGATAACTATAGGGCA
TGGCAAGCAAAGGAG

Alignment

ORF - retro_shar_517 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.53 %
• Parental protein coverage: 96.55 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  APAMSLPELRSILATDRDRVR-LIDVRSREESAAGTIPGALNIPVSELENALRMEPADFQATYFAEKPRP
          A.A..LPELRSILAT..D.V...IDV.S.EES..GTIPGALNI..S.LEN.L.MEPAD.QATYFA.KPRP
Retrocopy ALAI*LPELRSILATYWDWVQ<VIDVSSWEESVTGTIPGALNILIS*LENVLCMEPADSQATYFAKKPRP

Parental  EEENLVFFCQIGSNECHAMQTARELEYLGANYEDNYRAWQAKE
          EEENLVF.CQ.GSNECHAMQTARELEYLGANYEDNYRAWQAKE
Retrocopy EEENLVFLCQTGSNECHAMQTARELEYLGANYEDNYRAWQAKE

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_517 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000000506	1 retrocopy	retro_ecab_631,
Sarcophilus harrisii	ENSSHAG00000016118	1 retrocopy	retro_shar_517 ,