RetrogeneDB ID: retro_shar_37

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL841316.1:1131403..1132420(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSHAG00000012919
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSHAG00000009438
• Aliases: None
• Description: None

Sequence

>retro_shar_37
TTGGATTACCAGGGTTCTTTCCTAGAGGAGGACAGCACCCTGATCCGCTTTGCTTTGGAGAAAAACAAGAAAGCCAAAGG
CTCAGGTGAAATTACTCAACTGCTCACTAGCCTCTGTACTGCCGTCAAAATCATTTCCTGCGTCGTGCGTAAAGCGGGAA
TAATCCAACTCTATGGAATTGCCCAGCCAACAAATACGATGAATGAACACGTTAAGAAATTGGATGTCTTCTCCAACGAG
CTGATTATTAACACATTAAGGTCATCCTTTGCCACATGTGTCCTTGTGTCAAAAGAAAATACAAGTGCCATAATAATAGA
ACCGGAAAAAAGAGGAAAATACGTGGTTTGCTTTGATCCTCTGGATGGTATTTCTAACACTGACTGCCTTGGTCCCATTG
GCAGCATTTTTGCCATTTATAGAAGGACATCAACTGGTGAGCCTTCTCAGGACGATGCTCTGCAGCCTGGTCGGAATATA
GTAAGCTCTGGGTATGCTCTATATGGCAGTGCCACAGTGATAGTGATCGCTACAGACTCTGGGGTAAATTGCTTTATGCT
GGATCCAGATATTGGGGAATTCATTTTAGTCAATAAAAATATCCAGATCAGGAGCAGAGGTAATATCTATAGTATCAATG
AAGGCTATACCAAGGATTATGAGCCTGCTGTCTTAGAGTACCTCCATGAAAAAAAATTCCCTCAGGACAATACAGCTCCC
TATACAGCAAGATATGTGGGTTCCATGGTTGCAGATGTGCACAGGACCTTGGTGTATGGAGGAATCTTTCTGTATCTAGC
CAATGAAATGTGCCCCCATGGAGAGCTGAGGCTCATCTATGAGTGTAACCCAATGGCCTTCATCATAGAAAGAGCTGGTG
GACTGGCTACCACAGGAAAGGAATCAGTACTGGATATTGTTCCTACTGAAATCCATCAGAAAATACCCCTGATTTTGGGG
TCTCCTGAGGATGTGAAGGAGTTCTTGAAGATTTATAAGAAGCATGCTGAGAAATGA

Alignment

ORF - retro_shar_37 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.03 %
• Parental protein coverage: 98.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QSVFDTDVITLTRFVMEEGRKAKGTGEMTQLLNSLCTAVKAISSAVRKAGIAHLYGIAGSTNVTGDQVKK
          Q..F.....TL.RF..E...KAKG.GE.TQLL.SLCTAVK.IS..VRKAGI..LYGIA..TN.....VKK
Retrocopy QGSFLEEDSTLIRFALEKNKKAKGSGEITQLLTSLCTAVKIISCVVRKAGIIQLYGIAQPTNTMNEHVKK

Parental  LDVLSNDLVINMLKLKSSFSTCVLVSEENKNAIIVEPEKRGKYVVCFDPLDGSSNIDCLASIGTIFAIYR
          LDV.SN.L.IN.L...SSF.TCVLVS.EN..AII.EPEKRGKYVVCFDPLDG.SN.DCL..IG.IFAIYR
Retrocopy LDVFSNELIINTLR--SSFATCVLVSKENTSAIIIEPEKRGKYVVCFDPLDGISNTDCLGPIGSIFAIYR

Parental  KTSDGEPSEKDALQPGRNLVAAGYALYGSATMLVLAMACGVNCFMLDPAIGEFILVEKDVKIKKKGNIYS
          .TS.GEPS..DALQPGRN.V..GYALYGSAT..V.A...GVNCFMLDP.IGEFILV.K...I...GNIYS
Retrocopy RTSTGEPSQDDALQPGRNIVSSGYALYGSATVIVIATDSGVNCFMLDPDIGEFILVNKNIQIRSRGNIYS

Parental  LNEGYARDFDPAITEYIQKKKFPQDNTAPYGARYVGSMVADVHRTLVYGGVFLYPANKKSPKGKLRLLYE
          .NEGY..D..PA..EY...KKFPQDNTAPY.ARYVGSMVADVHRTLVYGG.FLY.AN...P.G.LRL.YE
Retrocopy INEGYTKDYEPAVLEYLHEKKFPQDNTAPYTARYVGSMVADVHRTLVYGGIFLYLANEMCPHGELRLIYE

Parental  CNPMAFVMEKAGGLATTGNKAVLDIVPTDIHERAPVILGSPDDVNEFIEIYKKHAAK
          CNPMAF..E.AGGLATTG...VLDIVPT.IH...P.ILGSP.DV.EF..IYKKHA.K
Retrocopy CNPMAFIIERAGGLATTGKESVLDIVPTEIHQKIPLILGSPEDVKEFLKIYKKHAEK

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_37 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000011259	2 retrocopies	retro_meug_1438, retro_meug_1974,
Sarcophilus harrisii	ENSSHAG00000009438	1 retrocopy	retro_shar_37 ,