RetrogeneDB ID: retro_shar_8

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL861566.1:355784..357467(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSHAG00000007815
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSHAG00000016145
• Aliases: None
• Description: None

Sequence

>retro_shar_8
ATGATCGATATGCATGAGATGGGTTCGATGCCTGATGATGTCTTTGAGTCACCCCCACTCTCTGCCAGCGACTTCCGAGG
GATCCCACGCTCTGCTTCTCCCCAGTCCCCTGAAGGTCTACACATTCCGCTGAAGGATTACACCCAAGGGCCAGCTCCAG
CCACCAAGCGGGGTCAGTGTATTGCCTCCAAGGTTAAACACTTTGCCTTTGACCGGAAAAAGCGGCACTACGGGCTGGGC
GTGGTAGGGAGCTGGCTGAACCGGAGCTACAGAGGCAGCATCAGCAGTACTGTGCAGCACCAGCTAGAGAACTTTAGCAG
TCACCGGCCATATTTTACTTACTGGCTGACTGTTATGCACATCCTGATCATGCTCCTGGTGATTGGCACCTATGGCATTG
CCCCTATTGGGTTTGCTCAGCATGTCACCACCCAGCTGATGCTAAGGAATAAAGGCATGTATGAGAGTGTAAAGTACATC
CAACAAGAGAACTTCTGGATTGGCCCAAGCTCGATTGATTTGATCCACTTGGGGGCCAAGTTTTCCCCATGCATCCGGAA
GGATCAGCAAGTCGAGCGGTTGATCCAGTGGGAAAGAGATCAAGAGCAGAACTCAGGCTGCTGTGTCCAGAATGACAACT
TGGGCTGTATCCAGACTCAGCAGGCAAACTGCTCAGAGATTTTGGCTACTTTCATTAAATGGCAAGATGACACTGGTCCC
CCCATGGACAAGTCTAACTCAAGCTTGAGGCGGACATCAGGGGCTGTTTGCCACCAGGACCCCAGGACATGTGAGGAGCC
AGCCTCCAGTGGAGCTCATGTTTGGCCAGATGATATCACCAAGTGGCCAATCTGCACAGAGCAGACCAAGAATAATCACA
CTGGCTTCCTTCACATGGACTGCCAGATCAAGGGTCGCCCGTGTTGCATTGGTACAAAGGGCAGCTGTGAGATCACAACC
CGGGAATACTGTGAGTTCATGCATGGCTATTTCCATGAAGAAGCAACACTCTGTTCTCAGATACACTGCTTGGACAAAGT
ATGTGGGCTTCTGCCATTCCTGAACCCTGAAGTCCCTGATCAGTTCTACAGACTGTGGTTGTCTCTGTTCCTCCACGCTG
GGTTGGGGCACTGCTTTGTGTCTGTGCTCTTCCAAATGACCATCCTGCGGGACCTGGAAAAATTGGCAGGCTGGCTCCGA
ATTGCCATCATCTTTATCCTCAGTGGGATCACAGGCAATTTAGCCAGTGCCATCTTCCTTCCATATAGAGCAGAGGTGGG
ACCTGCAGGCTCCCAGTTTGGCATCCTGGCCTGCCTCTTTGTGGAACTCATCCAGAGTTGGCAGCTCCTGGAAAAGCCCT
GGAAGGCGTTCCTGAACCTGTCGAGCATTGTGTTCTTCCTCTTCATCTGTGGGGTCCTGCCTTGGATCGACAACATTGCC
CACATTTTCGGGTTTCTTAGTGGCCTGCTCCTCTCCTTCACTTTCCTGCCCTACATCACCTTTGGTACCGGAGACAAGTA
CCGCAAACGAGCCATGATCCTGGTATCCCTGGTGATCTTTGCAGGTCTTTTTGCCTCCCTCGTCATCTGGCTGTATGTCT
ACCCCATCAACTGGCCCTGGATTGAATACCTCACCTACTTCCCCTTCACCAGCCAATTCCGTGAGAAATATGAGCTGGAC
TAG

Alignment

ORF - retro_shar_8 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.63 %
• Parental protein coverage: 67.31 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IDMHEMGSMPDDVFESPPLSASYFRGIPCSASPQSPEGLHIPLKDYV-APAPATKRGQRIASKVKHFAFD
          IDMHEMGSMPDDVFESPPLSAS.FRGIP.SASPQSPEGLHIPLKDY...PAPATKRGQ.IASKVKHFAFD
Retrocopy IDMHEMGSMPDDVFESPPLSASDFRGIPRSASPQSPEGLHIPLKDYTQGPAPATKRGQCIASKVKHFAFD

Parental  RKKRHYGLGVVGSWLNRSYRRSISSTVQHQLENFSSHRPYFTYWLTVVHILITLLVIGTYGIAPIGFAQH
          RKKRHYGLGVVGSWLNRSYR.SISSTVQHQLENFSSHRPYFTYWLTV.HILI.LLVIGTYGIAPIGFAQH
Retrocopy RKKRHYGLGVVGSWLNRSYRGSISSTVQHQLENFSSHRPYFTYWLTVMHILIMLLVIGTYGIAPIGFAQH

Parental  VTTQLVLRNKGVYESVKYIQQENFWIGPSSIDLIHLGAKFSPCIRKDQQVERLIQRERDQERNSGCCVQN
          VTTQL.LRNKG.YESVKYIQQENFWIGPSSIDLIHLGAKFSPCIRKDQQVERLIQ.ERDQE.NSGCCVQN
Retrocopy VTTQLMLRNKGMYESVKYIQQENFWIGPSSIDLIHLGAKFSPCIRKDQQVERLIQWERDQEQNSGCCVQN

Parental  DNSGCIQTQRADCSETLATFTKWQDDTGPPMDKSNPSLRRTSGAVCHQDPRTCEEPASSGAHIWPDDITK
          DN.GCIQTQ.A.CSE.LATF.KWQDDTGPPMDKSN.SLRRTSGAVCHQDPRTCEEPASSGAH.WPDDITK
Retrocopy DNLGCIQTQQANCSEILATFIKWQDDTGPPMDKSNSSLRRTSGAVCHQDPRTCEEPASSGAHVWPDDITK

Parental  WPICTDQAKNNHTGFLHMDCQIKGRPCCIGTKGSCEITTREYCEFMHGYFHEEATLCSQVHCLDKVCGLL
          WPICT.Q.KNNHTGFLHMDCQIKGRPCCIGTKGSCEITTREYCEFMHGYFHEEATLCSQ.HCLDKVCGLL
Retrocopy WPICTEQTKNNHTGFLHMDCQIKGRPCCIGTKGSCEITTREYCEFMHGYFHEEATLCSQIHCLDKVCGLL

Parental  PFLNPEVPDQFYRLWLSLFLHAGLGHCLVSVLFQMTILRDLEKLAGWLRIAIIFILSGITGNLASAIFLP
          PFLNPEVPDQFYRLWLSLFLHAGLGHC.VSVLFQMTILRDLEKLAGWLRIAIIFILSGITGNLASAIFLP
Retrocopy PFLNPEVPDQFYRLWLSLFLHAGLGHCFVSVLFQMTILRDLEKLAGWLRIAIIFILSGITGNLASAIFLP

Parental  YRAEVGPAGSQFGILACLFVELIQSWQLLEKPWKAFLNLSGIVFFLFICGLLPWIDNIAHIFGFLSGLLL
          YRAEVGPAGSQFGILACLFVELIQSWQLLEKPWKAFLNLS.IVFFLFICG.LPWIDNIAHIFGFLSGLLL
Retrocopy YRAEVGPAGSQFGILACLFVELIQSWQLLEKPWKAFLNLSSIVFFLFICGVLPWIDNIAHIFGFLSGLLL

Parental  SFAFLPYITFGTGDKYRKRAMILVSLVIFAGLFASLVIWLYVYPINWPWIEYLTCFPFTSRFCEKYELD
          SF.FLPYITFGTGDKYRKRAMILVSLVIFAGLFASLVIWLYVYPINWPWIEYLT.FPFTS.F.EKYELD
Retrocopy SFTFLPYITFGTGDKYRKRAMILVSLVIFAGLFASLVIWLYVYPINWPWIEYLTYFPFTSQFREKYELD

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_8 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Sarcophilus harrisii	ENSSHAG00000016145	1 retrocopy	retro_shar_8 ,