RetrogeneDB ID: retro_shar_122

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL864810.1:299090..300872(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSHAG00000007253
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSHAG00000004211
• Aliases: None
• Description: None

Sequence

>retro_shar_122
ATGGAGCCCCAGCCCACGGCCGGACCCCAGCAGGGATCCTGGTACAAGATGGCGCCGCAGCTGACCACCTACGAGGAGCT
GGCCACCAAGAAGTTTCTGAAGAAGATTAACAAGTGGACGTCTCAGTACAATGTGTCTCCGATCCCTTGGAAGCTGGCTG
TCAGGTTTCTCGTGGCTAGAAAGTTTGATGTCCGCCTGGCTGTTGAATTGTTCCGCGCCTACGTGAAAATGCGACAGAAA
GAAGGAATCTTAAATCTGAGGCCTGATGAGGAACCCCTCCGTTCAGAAATCCTCAGTGGGAAGTTTACTATTCTAAATAC
ACGGGATCCCTCTGGAGCCTCCATCGCTCTCTTCACTGCTAAATTACATCATCCCCATAAATCCTCTCAACGTGTAGTGC
TCCAGGCTCTGTTTTACCTGCTGGACAGAGCACTGGATAGTTTTGAAATTCAAAGAAATGGACTGGTGTTTATCTACGAC
ATGGAGGGTTCCAAATATAACAACTTCGAGCTAAAACTTGGCAAGAAAATCCTAAAGCTCCTGAAGGCAGCCTTTCCGGC
TCCCTTGAAGAAAGTATTTATTGTAGGGGCACCCATGTGGTTCCGAGTGCCCTATTCCATCATCAGTATCCTACTGAAAG
GCAAAGCCTGTGGAAGGATTCAGATAATGAAGACAAGTAAGTTGACCCAACACTTGCCTCCGGAGTGCCTTCCTGAAAGC
CTGGGAGGATATGTAAAGTTGGACCTCACCAGCTGGAACTTTCAATTTCTCCCTCAAATGAATGACCACGAGGACCCTCT
TGGTAAAATTATCTTATTGTCCCTCACTTCCTCTGAGGACAGTCACTCAGTGGACCACTCAGCCCCCCCAGCAATGAACA
TTGTGGAGCTGCTGGATCACTTCCACAGCAAGCAGAGGAGGGGAATTTACCAAGAATTTGAGAGCATTAACTATGCTCAC
CCTGTTGGCACTTTCCACTTTTCCATATTACCAGGTAACTTGGAGAAAAATAGGTACGATGATGTGATGTGCCTAGACGA
AACCCGGGTGAAGTTGATCAGAAGGATGGATGAGACCCAAACAGATTATATCAATGCCAATTTCATAGATGGCTATAATC
ATAAGAATGCTTACATTGGCACACAAGGTCCCTTGGAGAACACCTTTGGTGACTTTTGGCTCATGGTCTGGGAGCAGAAA
GTTCTGGTGATTGTCATGATCACACAACTTGAGGAAAGGGGCAAGAGAAAGTGTGGCCAGTACTGGCCCATGGAAAAAGA
TGACCAGTTCCAATTTGACTCTCTCATAGTTACCAATGAAGGAGTGGAACACATGAATTATTATAAGAAAACTACACTAG
AAATTCATAACATAGAAAACCAACAAAAAAGACAGGTTATCCACCTCCATTTCCTGAATTGGCCAGATTATGGGGTCCCT
GCCACTTCTGATTTGATTAACTTTCTCTTAGTGGTAAGAAAACAGCAGATGAAAGCAGTGGAGAACTTGGGAACATCCTT
CAAAGGTCATCCCAAAGGACCACCCATCGTCATCCATTGCAGCGCAGGCATTGGCAGGACAGGCACCTTTTGTTTGTTGG
ACATCTGCCTGGCAGAGCTGGAAGCGCTAGGCATGGTGAATGTGTTCCAGATACTGTCCCACATAAGAACCCAGAGGGCA
CTAAGCATCCAGAACCCAGAACAGTACTACTTCTGTTATAAGGCCATCATTGAATATTCCAGGAAGATGGGCACGCTGCC
CTCTGCTACTATCTCTGGGCAC

Alignment

ORF - retro_shar_122 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.4 %
• Parental protein coverage: 87.93 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ATKQFLEEINKWTVQYNVSPLSWNLAVRFLMARKFDVLRAIELFHAYREMRRKEGIVKLRPHEDPLRSEI
          ATK.FL..INKWT.QYNVSP..W.LAVRFL.ARKFDV..A.ELF.AY..MR.KEGI..LRP.E.PLRSEI
Retrocopy ATKKFLKKINKWTSQYNVSPIPWKLAVRFLVARKFDVRLAVELFRAYVKMRQKEGILNLRPDEEPLRSEI

Parental  LSGKFTILNTRDPSGASIALFTAKLHHPHKSSQHVVLQALFYLLDRAMDSFETQRNGLVFIYDMGGSNYN
          LSGKFTILNTRDPSGASIALFTAKLHHPHKSSQ.VVLQALFYLLDRA.DSFE.QRNGLVFIYDM.GS.YN
Retrocopy LSGKFTILNTRDPSGASIALFTAKLHHPHKSSQRVVLQALFYLLDRALDSFEIQRNGLVFIYDMEGSKYN

Parental  NFELDLGKKVLNLLKGAFPARLKKVLIVGAPMWFRVPYSIISILLKDKVRERIQIMRTSELTQHLPRECL
          NFEL.LGKK.L.LLK.AFPA.LKKV.IVGAPMWFRVPYSIISILLK.K...RIQIM.TS.LTQHLP.ECL
Retrocopy NFELKLGKKILKLLKAAFPAPLKKVFIVGAPMWFRVPYSIISILLKGKACGRIQIMKTSKLTQHLPPECL

Parental  PESLGGYIKLDLSSWNFQFLPQVNGHLDPLDEIILLSLTPSGDGDSVHVPGPQAMTIVELLEHFSHRQKR
          PESLGGY.KLDL.SWNFQFLPQ.N.H.DPL..IILLSLT.S.D..SV....P.AM.IVELL.HF...Q.R
Retrocopy PESLGGYVKLDLTSWNFQFLPQMNDHEDPLGKIILLSLTSSEDSHSVDHSAPPAMNIVELLDHFHSKQRR

Parental  GIYEEYEDIRRENPVGTFHCSMSPGNLEKNRYGDVPCLDQTRVKLTKGSGVAQTDYINASFMDGYKQKNA
          GIY.E.E.I....PVGTFH.S..PGNLEKNRY.DV.CLD.TRVKL.......QTDYINA.F.DGY..KNA
Retrocopy GIYQEFESINYAHPVGTFHFSILPGNLEKNRYDDVMCLDETRVKLIRRMDETQTDYINANFIDGYNHKNA

Parental  YIGTQGPLENTYHDFWLMVWEQKVLVIVMTTRFEEGGRRKCGQYWPLEKDCRIRFGFLTVTNQGVENMNH
          YIGTQGPLENT..DFWLMVWEQKVLVIVM.T..EE.G.RKCGQYWP.EKD....F..L.VTN.GVE.MN.
Retrocopy YIGTQGPLENTFGDFWLMVWEQKVLVIVMITQLEERGKRKCGQYWPMEKDDQFQFDSLIVTNEGVEHMNY

Parental  YKKTTLEIHNTEERQKRQVIHFQFLSWPDYGVPSSADSLIDFLRVVRNQQKMAVRSLGPRFKGHPRGPPI
          YKKTTLEIHN.E..QKRQVIH..FL.WPDYGVP...D.LI.FL.VVR.QQ..AV..LG..FKGHP.GPPI
Retrocopy YKKTTLEIHNIENQQKRQVIHLHFLNWPDYGVPATSD-LINFLLVVRKQQMKAVENLGTSFKGHPKGPPI

Parental  VVHCSAGIGRTGTFCSLDICLAQLEELGTLNVFQTVSRMRTQRAFSIQTPEQYYFCYKAIIEYALKEGMV
          V.HCSAGIGRTGTFC.LDICLA.LE.LG..NVFQ..S..RTQRA.SIQ.PEQYYFCYKAIIEY..K.G..
Retrocopy VIHCSAGIGRTGTFCLLDICLAELEALGMVNVFQILSHIRTQRALSIQNPEQYYFCYKAIIEYSRKMGTL

Parental  P
          P
Retrocopy P

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_122 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	ENSSHAG00000004211	1 retrocopy	retro_shar_122 ,