RetrogeneDB ID: retro_shar_219

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL834696.1:66642..66926(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSHAG00000011251
• Aliases: None
• Description: None

Sequence

>retro_shar_219
ATGGAAATAACAATCAAGAATTCACCTTATAGCTGGGAAGATTCTACAGAAGGTAAAGATGAGGAAAGTGATTCCTTGGC
CATTAAAATTACCCCAGCAAATATTGCATAAGGAAAAAGGGGCATCACAAAGAAGATGAAAAAAGGAATAAGGAGATTGG
TCATCATAATCATTCAGCAGAATGAAGCATTCCCAAGGTGGAAGAGAAGTGAAAATATGATTTGTGAAAAAGCCATTTGG
AGGAGCAAAACAAAGTTTTCTGGGAATGGGAAAGGCAGAAAAGA

Alignment

ORF - retro_shar_219 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.52 %
• Parental protein coverage: 58.43 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MEITIRNSPYRREDSMEDRGEEDDSLAIKP-PQQMSRKEKA-HHRKDEKRKEKRRHRSHSAEGVGKHARV
          MEITI.NSPY..EDS.E...EE.DSLAIK..PQQ...KEK..HH..DEKR.....H..H..........V
Retrocopy MEITIKNSPYSWEDSTEGKDEESDSLAIKI>PQQILHKEKG>HHKEDEKRNKEIGH--HNHSAE*SIPKV

Parental  KEKEREHERRKRHREEQDKARREWERQKR
          .EK.......K.H.EEQ.K...EWERQKR
Retrocopy EEK*K-YDL*KSHLEEQNKVFWEWERQKR

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_219 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
Rattus norvegicus	ENSRNOG00000046253	1 retrocopy	retro_rnor_2850,
Sarcophilus harrisii	ENSSHAG00000011251	3 retrocopies	retro_shar_219 , retro_shar_371, retro_shar_509,