RetrogeneDB ID: retro_shar_47

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL861690.1:523614..524529(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSHAG00000009263
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSHAG00000017878
• Aliases: None
• Description: None

Sequence

>retro_shar_47
ATGTCTGGCCAGAAGAACGTTCCGTCTTGGCCGGTGGATTACCGGGAGGATTCAGAGTCCCAGTCAGACAGCGAGGCTGG
AGTGGAAGCGGCTGGAAGGGTGACGGGAGCGGAGGAAAAGGGGGGCTTGGTGTCCGAAGCCGATGCAGATGATTTTTCTC
GACTCGAGGGAGATCAAGATGGTTACCAAGAAGGGGATGAAGAAAACATCGGACACTCAGAAGGTGCCGATTCGAAGATC
AAAAAGCCGCGGGCTGATGCTCCAAAGGAGTTTTCAGACCTGGAAAAGAGAGATCCCCAGGAGCTGTTTACGTCTTTCCT
GGAGAGCCTCAGGAGCATGTCTCCCGAAGAAATTAAGATCCCCCCAGGTCCACCTGGCAAGTGCTCAAGCCAACTCCAGG
ACAAGATAGAAAAACTATATGAGCGGAAAATAAAGGAAAGGATGGATATGAATTACCTCATTCAGAGGAAGAAGGAATTT
CGGAATCCCTGTATCTATGAGAAGCTTGTCCAGTACTACTCAATTGATGAATTTGGCACCAATTATCCCAAGGATATTTT
TGATCCCTCTGGATGGTCTGAGGATTCCTACTATGAGGCACTAGCTAAAGCCCAGAAGATTGAGATGGACAAATTGGAAA
AAGGCAAGAAGGAGAGAACGAAAATTGGGTTTGAGAGAGGCCCCAAGAAGGGCACCACAAGCAATGCCCCAATCACAGCC
AGCACCGGAGCTCCAGCTGCTCAGAAGAGAAAGAGCAAGTGGGATTGTGCTATCCCAGGGACCAAGACAGCCCAGCCTAC
CGTCCTTACCCCAACAACTCCCTTGCCAGCTGTTGTCACAGTGACAGCCAGAGCTAGTGGCTCCAAAACCACGGTCATCT
CGGCTGAGGGCATCGTTGTGAAGAAAGCCAGGCAA

Alignment

ORF - retro_shar_47 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.4 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAGKKNVLSSLAVYAEDSEPESDSEAGVEAAGSATAAGLEEKGGLVSEAYGDDDFSRLEGDEDGYEEEDE
          M.G.KNV.S....Y.EDSE..SDSEAGVEAAG..T..G.EEKGGLVSEA..DD.FSRLEGD.DGY.E.DE
Retrocopy MSGQKNVPSWPVDYREDSESQSDSEAGVEAAGRVT--GAEEKGGLVSEADADD-FSRLEGDQDGYQEGDE

Parental  ENSRQSEDDDSETEKPETDDLKEFSELEKRDPQELVASFSERVRNMSPDEIKIPPEPPGRCSNHLQDKIQ
          EN...SE..DS...KP..D..KEFS.LEKRDPQEL..SF.E..R.MSP.EIKIPP.PPG.CS..LQDKI.
Retrocopy ENIGHSEGADSKIKKPRADAPKEFSDLEKRDPQELFTSFLESLRSMSPEEIKIPPGPPGKCSSQLQDKIE

Parental  KLYERKIKEGMDMNYIIQRKKEFRNPSIYEKLIQYCSIDELGTNYPKDMFDPHGWSEDSYYEALAKAQKI
          KLYERKIKE.MDMNY.IQRKKEFRNP.IYEKL.QY.SIDE.GTNYPKD.FDP.GWSEDSYYEALAKAQKI
Retrocopy KLYERKIKERMDMNYLIQRKKEFRNPCIYEKLVQYYSIDEFGTNYPKDIFDPSGWSEDSYYEALAKAQKI

Parental  EMDKLEKAKKERTKIEFVTGTKKGTTTNAAATTTTTASTAATDAQKRKSKWDSAIPVTTIAQPTILTTTA
          EMDKLEK.KKERTKI.F..G.KKGTT.NA..T....AST.A..AQKRKSKWD.AIP.T..AQPT.LT.T.
Retrocopy EMDKLEKGKKERTKIGFERGPKKGTTSNAPIT----ASTGAPAAQKRKSKWDCAIPGTKTAQPTVLTPTT

Parental  TLPAVVTVTTSASGSKTTVISAVGTIVKKAKQ
          .LPAVVTVT..ASGSKTTVISA.G..VKKA.Q
Retrocopy PLPAVVTVTARASGSKTTVISAEGIVVKKARQ

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_47 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 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Ficedula albicollis	ENSFALG00000001071	1 retrocopy	retro_falb_23,
Macropus eugenii	ENSMEUG00000013106	2 retrocopies	retro_meug_1388, retro_meug_1734,
Monodelphis domestica	ENSMODG00000007562	4 retrocopies	retro_mdom_1207, retro_mdom_1211, retro_mdom_1212, retro_mdom_1602,
Sarcophilus harrisii	ENSSHAG00000017878	2 retrocopies	retro_shar_19, retro_shar_47 ,
Taeniopygia guttata	ENSTGUG00000008426	1 retrocopy	retro_tgut_1,
Tarsius syrichta	ENSTSYG00000009667	2 retrocopies	retro_tsyr_175, retro_tsyr_74,