RetrogeneDB ID: retro_shar_45

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL841397.1:3626114..3627104(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSHAG00000018472
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSHAG00000013955
• Aliases: None
• Description: None

Sequence

>retro_shar_45
ATGGCAACAGAAGAGAAGAAAGCAGGGACAGTCAATACAACACTAACTGCCAATGAGAAGAAACTGTCTGATTTTGAAAA
ACCCAACTATCAGCTACAATTCACTCTAGAAGGGCACACTAAAGCAATATCTGCTGTCAAATTTAGTCCCAATGGAGAAT
GGCTAGCAAGTTCTTCTGCTGACAGACAAATTAAAATTTGGGGAGCATACGATGGGAAATATCTGAAAAAACTAATTGGT
CACAAACTGGGAATATCAGACATTGCTTGGTCATCAGACTCCCAACTTATTGTTTCTGCCTCAGATGATAAAACTCTTAA
AATATGGCATTGTTTTACAGGGAAATGCAGAAAAACCTTGAAAGGACACAATAATTACGTCTTTTGCTGCAACTTTAGCC
CCCAGTCCAATTTCGTCTATTCAGGCTCTTTTGATCAAAGCGTGAGGATATGGGATGTGAAAACTGGAAGATGCCTCAAG
TGTTTTACTGCTCATGCAGACCCAGTTACAGCTGTTCATTCCAATTGGAAGGGATCTTTGTTGGTGTCAAGTAGTTATGA
TGGTTTCTGCCGGATCTGGGATATAGAAGCATGTGAATATGTTAGAACAATTAGTTGTGACAAGAATCCTCCAGTTTCTT
TTGTGAAATTCACTCCAAATGGAGAGTACATTCTTATTGCAACTCTGGACAATACACTTAAATTGTGGGACTTTGGGAAG
GGGAAGTGCCTGAAGACATATACTGGCCATAAGAATGAAAAATACTGTATTTTTGCTAATTTTTCTGAAACTAATCCACA
ACAAATTGTGTCAGGGTCAGAAGACAATATAGTTTACATTTGGAATATTGATACAGAAGAGATTGTGCAGAAGTTGTATG
GTCACACAGATACAGTGATCTCCACAGCTTGTCACCCAAAAGAAAGCATCATTGCATCAGCAGCCTTAGAAAAAGATAAG
ACAATAAAATTGTGGAAGAATTCTGAATAA

Alignment

ORF - retro_shar_45 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.08 %
• Parental protein coverage: 90.12 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KPNYALKFTLAGHTKAVSSVKFSPNGEWLASSSADKLIKIWGAYDGKFEKTISGHKLGISDVAWSSDSNL
          KPNY.L.FTL.GHTKA.S.VKFSPNGEWLASSSAD..IKIWGAYDGK..K...GHKLGISD.AWSSDS.L
Retrocopy KPNYQLQFTLEGHTKAISAVKFSPNGEWLASSSADRQIKIWGAYDGKYLKKLIGHKLGISDIAWSSDSQL

Parental  LVSASDDKTLKIWDVSSGKCLKTLKGHSNYVFCCNFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHS
          .VSASDDKTLKIW....GKC.KTLKGH.NYVFCCNF.PQSN...SGSFD.SVRIWDVKTG.CLK...AH.
Retrocopy IVSASDDKTLKIWHCFTGKCRKTLKGHNNYVFCCNFSPQSNFVYSGSFDQSVRIWDVKTGRCLKCFTAHA

Parental  DPVSAVHFNRDGSLIVSSSYDGLCRIWDTASGQCLKTLIDDDNPPVSFVKFSPNGKYILAATLDNTLKLW
          DPV.AVH.N..GSL.VSSSYDG.CRIWD........T...D.NPPVSFVKF.PNG.YIL.ATLDNTLKLW
Retrocopy DPVTAVHSNWKGSLLVSSSYDGFCRIWDIEACEYVRTISCDKNPPVSFVKFTPNGEYILIATLDNTLKLW

Parental  DYSKGKCLKTYTGHKNEKYCIFANFSVTGGKWIVSGSEDNLVYIWNLQTKEIVQKLQGHTDVVISTACHP
          D..KGKCLKTYTGHKNEKYCIFANFS.T....IVSGSEDN.VYIWN..T.EIVQKL.GHTD.VISTACHP
Retrocopy DFGKGKCLKTYTGHKNEKYCIFANFSETNPQQIVSGSEDNIVYIWNIDTEEIVQKLYGHTDTVISTACHP

Parental  TENIIASAALENDKTIKLWKS
          .E.IIASAALE.DKTIKLWK.
Retrocopy KESIIASAALEKDKTIKLWKN

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_45 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 2 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Sarcophilus harrisii	ENSSHAG00000013955	3 retrocopies	retro_shar_34, retro_shar_45 , retro_shar_652,
Drosophila melanogaster	FBgn0040066	1 retrocopy	retro_dmel_69,