RetrogeneDB ID: retro_shar_803

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL864889.1:674266..674445(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GMFG
• Ensembl ID: ENSSHAG00000008772
• Aliases: None
• Description: glia maturation factor, gamma [Source:HGNC Symbol;Acc:4374]

Sequence

>retro_shar_803
GTGGAGATTGTCAAGGATTAATGGCTGGGAGTACTGGATGAAGAGCATGAGGGTATTTCACCTGAAGAGCTTAAAGATGA
ACTCTTGAATGACATCCTTGCTTCATTATATATAATCATAAATATCAACATGATGATTGAAGAGTTTCATCTCCTCTGTG
CTTTATTTTTTCTGATCCT

Alignment

ORF - retro_shar_803 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.1 %
• Parental protein coverage: 55.05 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MKVDKDRQLVVMEEEFQNISPEELRDELP-ERQPRFIVYSYKWLHEDGRLSYPLCFIFSSP
          ....KD..L.V..EE...ISPEEL.DEL..E..P.FI.Y..K..H.D.R.S.PLCFIFS.P
Retrocopy VEIVKD*WLGVLDEEHEGISPEELKDELL<E*HPCFIIYNHKYQHDD*RVSSPLCFIFSDP

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_803 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 6 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000006529	2 retrocopies	retro_dnov_1062, retro_dnov_1435,
Echinops telfairi	ENSETEG00000008573	1 retrocopy	retro_etel_1630,
Gorilla gorilla	ENSGGOG00000006957	1 retrocopy	retro_ggor_1960,
Mus musculus	ENSMUSG00000060791	1 retrocopy	retro_mmus_2800,
Ochotona princeps	ENSOPRG00000015157	2 retrocopies	retro_opri_1160, retro_opri_160,
Sarcophilus harrisii	ENSSHAG00000008772	1 retrocopy	retro_shar_803 ,