RetrogeneDB ID: retro_shar_792

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL864856.1:357561..357821(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DRAP1
• Ensembl ID: ENSSHAG00000000960
• Aliases: None
• Description: DR1-associated protein 1 (negative cofactor 2 alpha) [Source:HGNC Symbol;Acc:3019]

Sequence

>retro_shar_792
GAGCATCAGTTCCATTTTTTGAAGGTTCAGTTGGCTTTGGGACTCACCATGCAGGGAGATGGAGAAATCAATACTGTGGT
TGGGGGAAAAGGTGCCTTAGGGTTTCAGAAGTCCAGGAGCAACAAGAAAAAAATGGTGGTACAGGAGGAAAGGAGAAAGG
TAAAGAATCTGGGATGAACTGGAAGCAGAAGGATGAGTGTGAAGACATAGAGACAGATGAGGAGGAACTATCACAGCTTC
CACACCAATCCACTGATCCA

Alignment

ORF - retro_shar_792 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.22 %
• Parental protein coverage: 63.77 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  EQQFDFLKDLVATVPDMQGDGEDNHLDGEKGARRGRK-PGSSR-KNGGAGGKGKDKKQSGTDSEQEDDSE
          E.QF.FLK...A....MQGDGE.N...G.KGA....K.PG..R.KNGG.GGK.K..K.SG....Q.D..E
Retrocopy EHQFHFLKVQLALGLTMQGDGEINTVVGGKGALGFQK>PGATR>KNGGTGGKEKG-KESGMNWKQKDECE

Parental  DTETDGEEEMPQPPAQPSRP
          D.ETD.EEE..Q.P.Q...P
Retrocopy DIETD-EEELSQLPHQSTDP

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_792 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017278	1 retrocopy	retro_amel_1762,
Mustela putorius furo	ENSMPUG00000011429	1 retrocopy	retro_mputfur_766,
Sarcophilus harrisii	ENSSHAG00000000960	1 retrocopy	retro_shar_792 ,