RetrogeneDB ID: retro_shar_522

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL849782.1:461937..462354(+)
• Located in intron of: ENSSHAG00000003551

Retrocopy information

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

Parental gene information

• Parental gene symbol: GSTO2
• Ensembl ID: ENSSHAG00000016340
• Aliases: None
• Description: glutathione S-transferase omega 2 [Source:HGNC Symbol;Acc:23064]

Sequence

>retro_shar_522
CCAAAAGATCCATATAAGTAAGCTTTACAAAAGATGATTTTGGCATTGTTTTCTAAGTTACCATCTTTGGCCAAGGATAT
TCTTCTTATAGAAATATGAAATTTAAAAGATGTATTGCCAAGAATGCAGAATTTCCTAAGGAATTCAACAAATTGGAAGA
GATTTTTACCTGACAGAAGATAACTTTGCTTGGTGAAAATTCTGTATTTATGATTGATTGTGTTGTCTGGTCCTATTTGA
ATAGTTTGAATGATATGAGATAGCCGATTTCATGGACCAAGCCTTGCTCTGAATTGGTGGGTGCCAGCCACGAAGAACAA
CCCCACAGCTGTAGCTTTCCTCTCTGATGTAAATACAAATAAAGAATTTGATCTTAACTTTCAAAATAATCCTGAGGCCA
TGGACTGTGTATTGTGT

Alignment

ORF - retro_shar_522 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.78 %
• Parental protein coverage: 56.45 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  PEDPYEKALQKMILESFSKIPSLTKD-ALIAVRNGED-CTNQKAELRKEFSKLEEILCRQKTTFLGGNSV
          P.DPY..ALQKMIL..FSK.PSL.KD..LI...N..D.C....AE..KEF.KLEEI...QK.T.LG.NSV
Retrocopy PKDPYK*ALQKMILALFSKLPSLAKDILLIEI*NLKD<CIAKNAEFPKEFNKLEEIFT*QKITLLGENSV

Parental  SMIDYLIWPW-FERLESYEIADCVEH-TPALKLWIDAMKKDPTVESLLTDLKTYKGFFELYFQNNPDAFD
          .MID...W...FE..E.YEIAD.......AL..W..A.K..PT....L.D..T.K..F.L.FQNNP.A.D
Retrocopy FMIDCVVWSY<FE*FE*YEIADFMDQ<SLALNWWVPATKNNPTAVAFLSDVNTNKE-FDLNFQNNPEAMD

Parental  YGLC
          ..LC
Retrocopy CVLC

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_522 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Sarcophilus harrisii	ENSSHAG00000016340	1 retrocopy	retro_shar_522 ,