RetrogeneDB ID: retro_meug_1902

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold70332:16306..16789(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBAC2
• Ensembl ID: ENSMEUG00000014722
• Aliases: None
• Description: UBA domain containing 2 [Source:HGNC Symbol;Acc:20486]

Sequence

>retro_meug_1902
AAGGTAGCTTTGCCAAAGAGTCTTTTACTAGTACCAGAGCTTTTTCAATTTTATTGGCTCTCCTCTTTCAACATTATCAG
AATTTCTTTGCATATAATCTACAAACTATAAAGACTGACTTGCAAGTCCAGAGATTGATATGTGGAAGAATAATTTGCCA
TGATTTGAAAGATACATTTTGCAGTGGCCTGCTTATACATAACTTTGGGATAGTTAGTTGAAAGGAGATCGGGCAACAGG
AAATTTACATCCTTTTCATGGGGTTCTTGGATTTTGTCAGTTTTGTTTGACTTGATTCTTGTGAGAGCTTCACCATGCTC
TTTTAGTATCACAGCCAGTTACTTGCCTTCTGGTTTTCTTGGGCCTGTATTTACTCTGTTTGTACCATTTTACAGCTACA
TTTCAAGAGTGAAAGTGACACAAACACTGGGCAAATTTTCCATCACAAATGCGACACTGATTTATATATTGGGGCTACAG
CTT

Alignment

ORF - retro_meug_1902 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.17 %
• Parental protein coverage: 54.42 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KAPLSKSLLLVPS-TLSILLALLFQHYQNFFVYNLQAVKNDLQIWRLICGRIICLDLKDTFCSSLLIYNF
          K..L.KSLLLVP....SILLALLFQHYQNFF.YNLQ..K.DLQ..RLICGRIIC.DLKDTFCS.LLI.NF
Retrocopy KVALPKSLLLVPE<AFSILLALLFQHYQNFFAYNLQTIKTDLQVQRLICGRIICHDLKDTFCSGLLIHNF

Parental  RIFE-RRYGSRK-FASFLLGSWILSALFDLILVEAMQYSFGITASNLPSGFLGPVFALFVPFYCSIPRVQ
          .I......G....F.SF..GSWILS.LFDLILV.A...SF.ITAS.LPSGFLGPVF.LFVPFY..I.RV.
Retrocopy GIVS*KEIGQQE>FTSFSWGSWILSVLFDLILVRASPCSFSITASYLPSGFLGPVFTLFVPFYSYISRVK

Parental  VTQILGQVSITNKTLIYVLGLQL
          VTQ.LG..SITN.TLIY.LGLQL
Retrocopy VTQTLGKFSITNATLIYILGLQL

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_1902 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1902 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000639	1 retrocopy	retro_chof_2688,
Dasypus novemcinctus	ENSDNOG00000005108	1 retrocopy	retro_dnov_603,
Macropus eugenii	ENSMEUG00000014722	1 retrocopy	retro_meug_1902 ,