RetrogeneDB ID: retro_shar_363

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL841491.1:1418444..1418765(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AKIRIN2
• Ensembl ID: ENSSHAG00000011555
• Aliases: None
• Description: akirin 2 [Source:HGNC Symbol;Acc:21407]

Sequence

>retro_shar_363
ATGCAGAAGAGAAGACATTTAGAAACTAGCTTCCAACAGACAAATGCTTGCTGTTCTTCTGATTCTCAGCCATATGCATT
TCTCCTCAATGGACCAGCTTCTCCAGGCACTTCATCTGCAGCTTCATCACCATTAAAAAAAGAACAGCCCCTATTTATTC
TAAGACAGGTTGGGATAATCTGTGAACATTTGCTGAAAGAATGTGAAGAAAAGGTTTGTGAAGGGTATGAAGAAATATTG
ACCACAAAACTTGCAGAACAATATGATGCATTTGTGAAATTTATGCATGAGCAGATAATGTGATGATATGGAGAACAGCC
T

Alignment

ORF - retro_shar_363 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.79 %
• Parental protein coverage: 95.54 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MQKRRHLETSFQQTDACCSSDSQPHAFLLNGPASPGTSSAASSPLKKEQPLFTLRQVGMICERLLKEREE
          MQKRRHLETSFQQT.ACCSSDSQP.AFLLNGPASPGTSSAASSPLKKEQPLF.LRQVG.ICE.LLKE.EE
Retrocopy MQKRRHLETSFQQTNACCSSDSQPYAFLLNGPASPGTSSAASSPLKKEQPLFILRQVGIICEHLLKECEE

Parental  KVREEYEEILTTKLAEQYDAFVKFTHDQIMRRYGEQP
          KV.E.YEEILTTKLAEQYDAFVKF.H.QIM..YGEQP
Retrocopy KVCEGYEEILTTKLAEQYDAFVKFMHEQIM**YGEQP

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_363 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 14 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003082	1 retrocopy	retro_cfam_1014,
Choloepus hoffmanni	ENSCHOG00000012160	1 retrocopy	retro_chof_413,
Callithrix jacchus	ENSCJAG00000000769	1 retrocopy	retro_cjac_2231,
Dasypus novemcinctus	ENSDNOG00000000549	1 retrocopy	retro_dnov_1788,
Homo sapiens	ENSG00000135334	1 retrocopy	retro_hsap_2991,
Gorilla gorilla	ENSGGOG00000002448	1 retrocopy	retro_ggor_2071,
Macaca mulatta	ENSMMUG00000002824	1 retrocopy	retro_mmul_1914,
Pongo abelii	ENSPPYG00000016831	1 retrocopy	retro_pabe_2477,
Pan troglodytes	ENSPTRG00000018409	1 retrocopy	retro_ptro_2023,
Rattus norvegicus	ENSRNOG00000008288	1 retrocopy	retro_rnor_1499,
Sorex araneus	ENSSARG00000006084	1 retrocopy	retro_sara_701,
Sarcophilus harrisii	ENSSHAG00000011555	2 retrocopies	retro_shar_363 , retro_shar_579,
Sarcophilus harrisii	ENSSHAG00000017458	1 retrocopy	retro_shar_577,
Sus scrofa	ENSSSCG00000004307	1 retrocopy	retro_sscr_897,