RetrogeneDB ID: retro_shar_677

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL856991.1:565590..565984(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ACRC
• Ensembl ID: ENSSHAG00000009206
• Aliases: None
• Description: acidic repeat containing [Source:HGNC Symbol;Acc:15805]

Sequence

>retro_shar_677
ATATGTCAAGTGCCTGGTTGTTTCTTGGAGAATCTTTCAGATTGGGAAGCATCTGATTATGGGAAGAACTTCCAGCTAAA
GAAAAAGTTGGCTTAGAAACTCTATAGTTTCTATAACAGCACAGTTTTTGAAAAACGGCTGCCAGAGAAAATGGAAATAA
TCTGGAACAAAAAGATATGTACAACAGCAGGATGCTGTTCTTATTCAGGCAAGGAAGATGGCCTAAAGGGAAGGCAAGGT
CAGAATCAAGCTTTCAGAAAAAGCCTGTGATTTTGCAGACCAGCTCTAGGACACACTGCTCCATGGATTATGCCCTGTGG
CTGTCTGGTTATTTCATGGCATCAGAAGTGGCCTTAGTCCCTCTGTCTATGCCCCAAAACACCCAAAGCTGCCT

Alignment

ORF - retro_shar_677 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.68 %
• Parental protein coverage: 71.66 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MCRVAGCFLADLSN-PTCEYVRYFQWKKTELTWKLYHFFNDTIFNKQLPEKMTINWNNKMRTTAGYCHFA
          .C.V.GCFL..LS......Y...FQ.KK..L..KLY.F.N.T.F.K.LPEKM.I.WN.K..TTAG.C...
Retrocopy ICQVPGCFLENLSDWEASDYGKNFQLKK-KLA*KLYSFYNSTVFEKRLPEKMEIIWNKKICTTAGCCSYS

Parental  GKKGGSQAGRS-VQIELSEKVCDSADRLRDTLIHELCHGATWLFHGIRDCHGPFWRVYAFSPPSLP
          GK..G...GR..V.I.LSEK.CD.AD.L.DTL.H.LC..A.WLFHGIR....P...VYA...P.LP
Retrocopy GKEDGLK-GRQ>VRIKLSEKACDFADQL*DTLLHGLCPVAVWLFHGIRSGLSP--SVYAPKHPKLP

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_677 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	ENSSHAG00000009206	1 retrocopy	retro_shar_677 ,