RetrogeneDB ID: retro_meug_2109

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold9142:37591..38290(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GOT2
• Ensembl ID: ENSMEUG00000012574
• Aliases: None
• Description: glutamic-oxaloacetic transaminase 2, mitochondrial [Source:HGNC Symbol;Acc:4433]

Sequence

>retro_meug_2109
ATGGTACTGTTGCAATCCTGCCTCCTGCTCTCTGGAGTCACCTCCTTTCACCCCAGCCTCTCCTTAGCTACCCCTACCAG
AGCCAGTTTTTGGTGGACCCACATAGAGATGGGCCCCCCTGACCCTATTTTGGGGGTTACAGAAGCATTTAAGAGGGACA
CCAACTGCAAGAAGATGAACCTGGGAGTTGGGGCCTACCGAGATGACAATGGGAAACCTTATGTTCTTCCAAGTGTCTGT
AAGGCAGAGACTCAAGTTGCAGGGAAGAACATGGATAAAGAGTGCCTGCCCATCACAAGACTAGCTGAATTCTGCAAGGC
ATCAACAAAGTTGGTGCTACGTGAAAATAGGAAAATTCTGAAAAGAAAATGATATGTCACCATGCAGACCATTTTTGAAA
CTGGAGTGTTAAGAGTGGGAGCCAGTTTTCTGCAATGGTTCTTCAAATCTTGCTGGGATGTCTATCTTCCAAAACCATCC
TGGGGAAGTCACACCCCCATCTTCAGGGATTCTGGCATGCAGCTGAATGGCTATCACTACTATGACCCCAAGACTTATGA
CTTTGACTTCACTGGAGCCTTGGAAGACATTTTAAAATTCCCAGAGCAGAGTGTCATCCTTTTACATGCTTATGTTTACA
ACCCCACCAGAGTCGATCCTGATCCTGAGCAGTGGAAAGAAATAACCTCCTTGGTAAAA

Alignment

ORF - retro_meug_2109 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.97 %
• Parental protein coverage: 54.57 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MALLQSCRLLSGAASFHPGLGAAAAARASSWWTHVEMGPPDPILGVTEAFKRDTNSKKMNLGVGAYRDDN
          M.LLQSC.LLSG..SFHP.L..A...RAS.WWTH.EMGPPDPILGVTEAFKRDTN.KKMNLGVGAYRDDN
Retrocopy MVLLQSCLLLSGVTSFHPSLSLATPTRASFWWTHIEMGPPDPILGVTEAFKRDTNCKKMNLGVGAYRDDN

Parental  GKPYVLPSVRKAEAQIAGKNMDKEYLPISGLAEFCKASAELALGENNEVVKSKRYVTVQTISGTGALRVG
          GKPYVLPSV.KAE.Q.AGKNMDKE.LPI..LAEFCKAS..L.L.EN....K.K.YVT.QTI..TG.LRVG
Retrocopy GKPYVLPSVCKAETQVAGKNMDKECLPITRLAEFCKASTKLVLRENRKILKRK*YVTMQTIFETGVLRVG

Parental  ASFLQRFFKSSRDVYLPKPSWGNHTPIFRDAGMQLNGYRYYDPKTCGFDFTGALEDISKIPEQSVILLHA
          ASFLQ.FFKS..DVYLPKPSWG.HTPIFRD.GMQLNGY.YYDPKT..FDFTGALEDI.K.PEQSVILLHA
Retrocopy ASFLQWFFKSCWDVYLPKPSWGSHTPIFRDSGMQLNGYHYYDPKTYDFDFTGALEDILKFPEQSVILLHA

Parental  CAHNPTGVDPRPEQWKEIASLVK
          ...NPT.VDP.PEQWKEI.SLVK
Retrocopy YVYNPTRVDPDPEQWKEITSLVK

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_2109 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2109 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 9 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017346	3 retrocopies	retro_amel_1805, retro_amel_815, retro_amel_846,
Canis familiaris	ENSCAFG00000008357	2 retrocopies	retro_cfam_586, retro_cfam_816,
Callithrix jacchus	ENSCJAG00000011234	1 retrocopy	retro_cjac_2916,
Gorilla gorilla	ENSGGOG00000005767	3 retrocopies	retro_ggor_2912, retro_ggor_449, retro_ggor_774,
Macropus eugenii	ENSMEUG00000012574	1 retrocopy	retro_meug_2109 ,
Macaca mulatta	ENSMMUG00000006000	1 retrocopy	retro_mmul_1337,
Mustela putorius furo	ENSMPUG00000004862	1 retrocopy	retro_mputfur_567,
Pongo abelii	ENSPPYG00000007413	3 retrocopies	retro_pabe_3640, retro_pabe_823, retro_pabe_901,
Rattus norvegicus	ENSRNOG00000011782	1 retrocopy	retro_rnor_2695,