RetrogeneDB ID: retro_meug_338

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold10284:3610..4446(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC25A19
• Ensembl ID: ENSMEUG00000008772
• Aliases: None
• Description: solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19 [Source:HGNC Symbol;Acc:14409]

Sequence

>retro_meug_338
CAGGTTGAGCACCTGTCATCCAGTGACCCACATGCAAAATACTATGGGATAATACAGGCAGCAAGGCAGATCTTGAACGA
GGAAGGCCTAACAGCATTTTGGAAGGGACATATTCCAGCTCAAATTCTCTCTGTAGGCTGTGGAGCTGTCTGATTTGTGA
CCTTTGAGCTCCTAACTGAACTGGTCCACAGAACTATGTGACATGACATGTGTGACTTTTCAGTGCATTTTGTGTGTGAC
AGCTTCTCTGCCTGCACCGCCACTCTTGCAGTGCAGCCTATTGATGTTGTCTGAACTCATTTTGCTGCTCAGCATGAGCC
CAAGATCTACAGAAACCTCCGTCATGGTGTGATGATGATGTAAAAGACTGAAGGTCCATTGGCATTCTACAGAGGCTTGC
CACCTGCCTTGATTGCCATCTTCCCTTGTGCGGTTTTCCAGTTCTACTTTTATAGTTCCCTGAAGCAAGTCTACAAATAG
GCCATTCCAATTGACAGGAAGAAAAATGCAAACCTCAAAAATCTGCTGTGTGGCAGTGGAGTGGGGGTCATCAGCAAGAC
TCTTCTGTATCCCCTGGATACAGGTTACAAGAAGAGGTTACAAGTGGGAGGCTTTGAGAAAGCCCAGGAACTCTTTGGAC
AGATTCGAAAATATGAGGGCTTTCTGGACTGCGTCTGGAAGATTTTCCAAGAATAGAGCACTCAGGGCTACTTTAAAGGC
CTCAGTCTCAGCTTACTGAATCTACTATGTCCATGGGCCTTGTGTTCTTCTGGTATGAGTTATTCTGTCACCTCCTCAGC
TTTAGGAGCACCTTGGACAGTAGAAGACAGGGCGAG

Alignment

ORF - retro_meug_338 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.71 %
• Parental protein coverage: 87.58 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QVEHLSSSDPHAKYYGIIQAARQILKEEGLTAFWKGHIPAQILSIGYGAVQFVTFELLTEVAHRTMWYDT
          QVEHLSSSDPHAKYYGIIQAARQIL.EEGLTAFWKGHIPAQILS.G.GAV.FVTFELLTE..HRTM..D.
Retrocopy QVEHLSSSDPHAKYYGIIQAARQILNEEGLTAFWKGHIPAQILSVGCGAV*FVTFELLTELVHRTM*HDM

Parental  GDFSVHFVCGGFSACAATLAVQPVDVLRTRFAA-GEPKIYRNLRHGVMMMYKNEGPLAFYRGLPPTLIAI
          .DFSVHFVC..FSAC.ATLAVQP.DV..T.FAA..EPKIYRNLRHGVMMM.K.EGPLAFYRGLPP.LIAI
Retrocopy CDFSVHFVCDSFSACTATLAVQPIDVV*THFAAQHEPKIYRNLRHGVMMM*KTEGPLAFYRGLPPALIAI

Parental  FPYAGFQFSFYSALKQVYEWAVPVDGKKNANLKNLLCGSGAGVISKTLTYPLDL-FKKRLQVGGFEKARE
          FP.A.FQF.FYS.LKQVY..A.P.D.KKNANLKNLLCGSG.GVISKTL.YPLD...KKRLQVGGFEKA.E
Retrocopy FPCAVFQFYFYSSLKQVYK*AIPIDRKKNANLKNLLCGSGVGVISKTLLYPLDTGYKKRLQVGGFEKAQE

Parental  PFGQVRKYEGFLDCVRKIFQEEGTQGFFKGLSPSLL-KSAMSTGLVFFWYELFCHLLSCRSR--TARQGE
          .FGQ.RKYEGFLDCV.KIFQE..TQG.FKGLS.SLL..S.MS.GLVFFWYELFCHLLS.RS.....RQGE
Retrocopy LFGQIRKYEGFLDCVWKIFQE*STQGYFKGLSLSLL<ESTMSMGLVFFWYELFCHLLSFRSTLDSRRQGE

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_338 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_338 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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	ENSMEUG00000008772	1 retrocopy	retro_meug_338 ,
Rattus norvegicus	ENSRNOG00000003918	2 retrocopies	retro_rnor_12, retro_rnor_1382,