RetrogeneDB ID: retro_shar_535

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL849847.1:2890639..2890909(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NAA38
• Ensembl ID: ENSSHAG00000018435
• Aliases: None
• Description: N(alpha)-acetyltransferase 38, NatC auxiliary subunit [Source:HGNC Symbol;Acc:20471]

Sequence

>retro_shar_535
GAGAACTACATCAACTGGATGGTTGCTATTTTTACATCTGATAGCAAAATGATTGTGGGAACCCCAAAAGGTTTTGATTA
GACTATCAATTTGATTTTGGTTGAAAGCCATAAAAGAGTATTCAGCTCTTCTCAGGGAGTAGAGCAAGTGGTATTAGGAT
TATACATTGTAAGAGGTGACAATATTGCAGTCATTGGAGAACTGATGAAGAGACAAACTGCACTTAATCTGGGAAATATT
TGAGCAGAACCTCTAAATTCAGTAGCACAC

Alignment

ORF - retro_shar_535 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.02 %
• Parental protein coverage: 94.79 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ENYINRTVAVITSDGRMIVGTLKGFDQTINLILDESHERVFSSSQGVEQVVLGLYIVRGDNVAVIGEIDE
          ENYIN..VA..TSD..MIVGT.KGFD.TINLIL.ESH.RVFSSSQGVEQVVLGLYIVRGDN.AVIGE...
Retrocopy ENYINWMVAIFTSDSKMIVGTPKGFD*TINLILVESHKRVFSSSQGVEQVVLGLYIVRGDNIAVIGELMK

Parental  ETDSALDLGNIRAEPLNSVAH
          ....AL.LGNI.AEPLNSVAH
Retrocopy R-QTALNLGNI*AEPLNSVAH

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_535 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 11 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000001162	1 retrocopy	retro_amel_1716,
Echinops telfairi	ENSETEG00000011594	1 retrocopy	retro_etel_491,
Felis catus	ENSFCAG00000023642	1 retrocopy	retro_fcat_1993,
Myotis lucifugus	ENSMLUG00000006837	1 retrocopy	retro_mluc_161,
Macaca mulatta	ENSMMUG00000015822	1 retrocopy	retro_mmul_2010,
Mustela putorius furo	ENSMPUG00000007100	1 retrocopy	retro_mputfur_1440,
Oryctolagus cuniculus	ENSOCUG00000017359	2 retrocopies	retro_ocun_1715, retro_ocun_954,
Otolemur garnettii	ENSOGAG00000013377	1 retrocopy	retro_ogar_1071,
Ochotona princeps	ENSOPRG00000014809	2 retrocopies	retro_opri_1033, retro_opri_227,
Sarcophilus harrisii	ENSSHAG00000018435	1 retrocopy	retro_shar_535 ,
Ictidomys tridecemlineatus	ENSSTOG00000009039	3 retrocopies	retro_itri_1623, retro_itri_364, retro_itri_679,