RetrogeneDB ID: retro_meug_1518

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold43356:13387..13855(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MCTS1
• Ensembl ID: ENSMEUG00000014328
• Aliases: None
• Description: malignant T cell amplified sequence 1 [Source:HGNC Symbol;Acc:23357]

Sequence

>retro_meug_1518
TTCGACGAGAAGGAGAACGTGTCCAACTGCATCCAGCTGAAGACGTCCGTCATCAAGGGCATCAAGAGCCAGCTGCTGGA
GCAGTTCCCGGGCATCGAGCCGTGGCTCAACCAGATCATGCCCAAGAAGGACCCGGTGAAGATCGTGCGCTGCCACGAGC
ACATCGAGATCCTGACGGTCAACGGCGAGCTGCTCTTCTTCCGGCAGCGCGAGGGCCCCTTCTTCCCGACGCTGCGCCTG
CTGCACAAGTACCCCTTCCTGCTGCCGCACCAGCGCGTCGACAAGGGCGCCATCAAGTTCGTGCTGAGCGGCGCCAACAT
CATGTGCCCGGGGCTGACGTCGCCCGGCGCGCGCCTCTACCCGGCGGCGGCCGACACGGTGGTGGCCATCATGGCGGAGG
GCAAGCAGCACGCGCTGTGCGTGGGCGTCATGAAGCTGGCGGCCGAGGACATCGAGCGCGTCAACAAG

Alignment

ORF - retro_meug_1518 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.44 %
• Parental protein coverage: 88.14 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FDEKENVFNSILLKTSVVKDVKNQLIAQLPRIEPWLNQIMPEKDPVKIVKCHKQIEILTVNGELLFFRQK
          FDEKENV.N.I.LKTSV.K..K.QL..Q.P.IEPWLNQIMP.KDPVKIV.CH..IEILTVNGELLFFRQ.
Retrocopy FDEKENVSNCIQLKTSVIKGIKSQLLEQFPGIEPWLNQIMPKKDPVKIVRCHEHIEILTVNGELLFFRQR

Parental  EGTFYPTLRLLHKYPLILPHQQIDKGSIRCILNGANILCSCLTSQGGKLSPAAPGTVVAVMAEGKQHALS
          EG.F.PTLRLLHKYP..LPHQ..DKG.I...L.GANI.C..LTS.G..L.PAA..TVVA.MAEGKQHAL.
Retrocopy EGPFFPTLRLLHKYPFLLPHQRVDKGAIKFVLSGANIMCPGLTSPGARLYPAAADTVVAIMAEGKQHALC

Parental  IGVMKMSAEDIERNNQ
          .GVMK..AEDIER.N.
Retrocopy VGVMKLAAEDIERVNK

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_1518 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1518 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 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000034992	1 retrocopy	retro_btau_116,
Canis familiaris	ENSCAFG00000018545	1 retrocopy	retro_cfam_94,
Echinops telfairi	ENSETEG00000015462	1 retrocopy	retro_etel_19,
Macropus eugenii	ENSMEUG00000014328	1 retrocopy	retro_meug_1518 ,
Myotis lucifugus	ENSMLUG00000015101	1 retrocopy	retro_mluc_16,
Monodelphis domestica	ENSMODG00000010354	1 retrocopy	retro_mdom_203,
Mustela putorius furo	ENSMPUG00000001407	1 retrocopy	retro_mputfur_98,
Mus musculus	ENSMUSG00000000355	3 retrocopies	retro_mmus_2504, retro_mmus_2505, retro_mmus_69,
Oryctolagus cuniculus	ENSOCUG00000014315	1 retrocopy	retro_ocun_212,
Ictidomys tridecemlineatus	ENSSTOG00000011496	2 retrocopies	retro_itri_1136, retro_itri_1468,