RetrogeneDB ID: retro_meug_1317

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold36654:11093..11885(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMEUG00000002386
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TIMMDC1
• Ensembl ID: ENSMEUG00000003777
• Aliases: None
• Description: translocase of inner mitochondrial membrane domain containing 1 [Source:HGNC Symbol;Acc:1321]

Sequence

>retro_meug_1317
TTCCCAAGGGTCCTTGCTGAGGAAAGCACCATTGCAATGGACTAGAGCTGCTCTCCTGAGAAGACTCTGCCTCCTCACGT
TAAGGGTCCGTTTTACCCAGAGTTAGGATGGGACCGCCTCAAGGAGCTTATTGTCAGAGATAAATGCCTGCCAGTCCCAG
AGGAAATTGATTATATTTACAAATCAGCAGCTTCAGGGGCAGTCGTTCGTTGGATATATGGTGGAATACCTGCTTTTTAT
CATCATTATATTTCTCAGAGTCATGCAGAGATTTCTTACAACCAATTTGATGCTGTGCAATCTGCCCATAGAGCTGCCAT
CCGAGGATTCATTCGGTATGGCTGGTGGTGGAGTTGGAGAACAGCTGTCTTTGTGACTCTATTTAACACAATGAACACTG
GTCTGAATGTATACCGAAATAAAAATGCCATAAGCCATTTTGTTGTTGCAGGAGCTGCTACAGGAAGTCTTTTCAGAATA
CACTTGGGTTTGAGTAGTCTGGTAGCTGGTGGTTTAATTGGAGCCATTCTGGGTGCTCCTTTTGGAATCACACTCATGGC
CATACAGAAGTTTCAAGGGGAGACTGTTTGGGACAGAAAACAGAAGGAGCGAAAAGAGCAGTATGAGTCCAAGCTGAATG
AGTGGAAGGCCACCCTACATGTTACTGATGCTGTCACTGAAGAATTCCAAAGTAACTTCAGAAAAAATCAATCAGAAAGA
GATGCAGAGAGAATTGAAGAGCTGTTAAATCTTCCTAGAAACCCTTCTTCAACAATAGGTAGTAAAGATGGG

Alignment

ORF - retro_meug_1317 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.51 %
• Parental protein coverage: 99.63 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FPRVLAEESTIATDSSCSPEKTLPPHIKGPFYPESGWDRLKELIVRDKRLPVPEEIDYIYKSAASGAIVG
          FPRVLAEESTIA.D.SCSPEKTLPPH.KGPFYPE.GWDRLKELIVRDK.LPVPEEIDYIYKSAASGA.V.
Retrocopy FPRVLAEESTIAMD*SCSPEKTLPPHVKGPFYPELGWDRLKELIVRDKCLPVPEEIDYIYKSAASGAVVR

Parental  WIYGGIPAFYHAKQRYISQSHAEIYYNRFDAVQSAHRAAIRGFIRYGWRWSWRTAVFVTLFNTVSTGLNV
          WIYGGIPAFYH....YISQSHAEI.YN.FDAVQSAHRAAIRGFIRYGW.WSWRTAVFVTLFNT..TGLNV
Retrocopy WIYGGIPAFYH---HYISQSHAEISYNQFDAVQSAHRAAIRGFIRYGWWWSWRTAVFVTLFNTMNTGLNV

Parental  YRNKNAISHFVVAGAATGSLFRIHLGLSSLVAGGLTGAILGAPFGITLMAIQKFQGETVWDRKQKERKEQ
          YRNKNAISHFVVAGAATGSLFRIHLGLSSLVAGGL.GAILGAPFGITLMAIQKFQGETVWDRKQKERKEQ
Retrocopy YRNKNAISHFVVAGAATGSLFRIHLGLSSLVAGGLIGAILGAPFGITLMAIQKFQGETVWDRKQKERKEQ

Parental  YESKLSEWKARLHVTDAVTEEFQSNFRKNQSERDAERIEELLNLPRNPSSTIDSKDG
          YESKL.EWKA.LHVTDAVTEEFQSNFRKNQSERDAERIEELLNLPRNPSSTI.SKDG
Retrocopy YESKLNEWKATLHVTDAVTEEFQSNFRKNQSERDAERIEELLNLPRNPSSTIGSKDG

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_1317 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1317 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000002519	1 retrocopy	retro_etel_1905,
Macropus eugenii	ENSMEUG00000003777	1 retrocopy	retro_meug_1317 ,
Monodelphis domestica	ENSMODG00000018197	2 retrocopies	retro_mdom_1842, retro_mdom_419,
Oryctolagus cuniculus	ENSOCUG00000009500	1 retrocopy	retro_ocun_940,