RetrogeneDB ID: retro_meug_536

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold13290:11397..11928(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000006906
• Aliases: None
• Description: None

Sequence

>retro_meug_536
ACCAAACCTCCAGAATATAAATGTGGGATTTCTAAAGCTTGTCCAGAAAAATATTTTGCCTTCAAAATGGCAAGTGGAGC
AGCAAATGTTGCTGGTCCCAAAATTTGTGTGGAAGACAATATTTTAATGAATGGTATAAAGAATAATGTTGGAAGAGAAG
TCAATGTTGCATTGGTAAATGGAAAAACAGAAGAAGTATAACTCACTAAATAATTTGATATGTGAGGAGGAGACATGACA
TCATTTATTGATTTCCTTAAGTCTATTCAGGATGGGACCATAGTTTTAATGGGAACATATGATGGTGGAGCAACCAAACT
CAATAATGAGGCAAGATTGCTGATTGCTTCCTTGGGAAGTACAGCTATAGCTAACCTTGATTTTAGAGACAATTGGGTCT
TCTGTGGTGGGAAAGGTATCAAGACAAAAAGTCTCTTTGAACAGCACATAAAGAATAACAAGGACACAAACAAATATGAA
AGATGACCAAAAGTTGTAGAAATGGAAAGATGTATCCCCCAAAAGCAAGAC

Alignment

ORF - retro_meug_536 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.62 %
• Parental protein coverage: 79.73 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TKPPRYKCGISKACPEKHFAFKMASGAANVVGPKICVEDNILMSGVKNNVGRGINVALVNXXXXXXXXXX
          TKPP.YKCGISKACPEK.FAFKMASGAANV.GPKICVEDNILM.G.KNNVGR..NVALVN..........
Retrocopy TKPPEYKCGISKACPEKYFAFKMASGAANVAGPKICVEDNILMNGIKNNVGREVNVALVNGKTEEV*LTK

Parental  XXDMWGGDVAPFIDFLKSIQDGTIVLMGTYDDGATKLNNEARLLIASLGSTAIANLDFRDNWVFCGGKGI
          ..DM.GGD...FIDFLKSIQDGTIVLMGTYD.GATKLNNEARLLIASLGSTAIANLDFRDNWVFCGGKGI
Retrocopy *FDM*GGDMTSFIDFLKSIQDGTIVLMGTYDGGATKLNNEARLLIASLGSTAIANLDFRDNWVFCGGKGI

Parental  KTKSPFEQHIKNNKDTNKYEGWPEVVEMEGCIPQKQD
          KTKS.FEQHIKNNKDTNKYE..P.VVEME.CIPQKQD
Retrocopy KTKSLFEQHIKNNKDTNKYER*PKVVEMERCIPQKQD

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_536 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_536 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003224	1 retrocopy	retro_chof_1467,
Felis catus	ENSFCAG00000023087	1 retrocopy	retro_fcat_1392,
Homo sapiens	ENSG00000196937	1 retrocopy	retro_hsap_4657,
Loxodonta africana	ENSLAFG00000010029	1 retrocopy	retro_lafr_1169,
Macropus eugenii	ENSMEUG00000006906	2 retrocopies	retro_meug_2057, retro_meug_536 ,
Monodelphis domestica	ENSMODG00000015478	1 retrocopy	retro_mdom_1392,
Sarcophilus harrisii	ENSSHAG00000015103	1 retrocopy	retro_shar_6,
Tursiops truncatus	ENSTTRG00000016229	2 retrocopies	retro_ttru_1219, retro_ttru_855,