RetrogeneDB ID: retro_meug_358

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold10485:3404..4033(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE2Q1
• Ensembl ID: ENSMEUG00000003718
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2Q family member 1 [Source:HGNC Symbol;Acc:15698]

Sequence

>retro_meug_358
TGTATACCAGAAGATGTTTCTTCTGAAGATGCAGATTAAGAGATGCCTGAGGATACAGAGGACCTAGATCACAATGAAAT
GAAAGAATAAGAGCCAACTGAGGGGGAAAAGTCCAAGGATGATGGCATTGGGAAGGAGAACTTGGCCATAGTAGAGAAAA
TTAAAAAGAACCAGAGACAGGATTACTTAAGTGCTGCAGTGTCCAGTTCGAGGCATGCCAAAGACCAACTGATGAAGGAG
TTCAGGAATATTTACCAATAACAGAGTTTCCAAGGCAGAGACAATGCAGCCAAACTAGTAAATGATAGCCTATATAACTG
GAATGATAAACTCCTCAAGGTTGACCAGGACAGTGCTTTGCACAGTGATCTCAGGATCCACAAAGAGAAGGAAGGAGCTG
ACTTCATTCTCCTCAACTTTTCTTTTAAAGACACATTCCTTTTGACACACCAGTTGTCAGGGTTGTCTCTCTAGGCCCCT
CAGGAGGGCATGTTCTGGGTAGGTGTGCCATTTGCATGGAAATACTCATTAAGCAGACCTGAACCACTGCCTATTCCATA
GAGTCCATGATCATGCAGATCAGTGCCACCCTGGTGAAAGGAAAAGCATGAGTCCAGTTTGGAAGCAAC

Alignment

ORF - retro_meug_358 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.83 %
• Parental protein coverage: 55.12 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  CTQEDVSSEDEDEEMPEDTEDLDHYEMKEEEPAEGKKSEDDGIGKENLAILEKIKKNQRQDYLNGAVSGS
          C..EDVSSED.D.EMPEDTEDLDH.EMKE.EP.EG.KS.DDGIGKENLAI.EKIKKNQRQDYL..AVS.S
Retrocopy CIPEDVSSEDAD*EMPEDTEDLDHNEMKE*EPTEGEKSKDDGIGKENLAIVEKIKKNQRQDYLSAAVSSS

Parental  VQATDRLMKELRDIYRSQSFKGGNYAVELVNDSLYDWNVKLLKVDQDSALHNDLQILKEKEGADFILLNF
          ..A.D.LMKE.R.IY..QSF.G...A..LVNDSLY.WN.KLLKVDQDSALH.DL.I.KEKEGADFILLNF
Retrocopy RHAKDQLMKEFRNIYQ*QSFQGRDNAAKLVNDSLYNWNDKLLKVDQDSALHSDLRIHKEKEGADFILLNF

Parental  SFKDNF-PFDPPFVRVVSPVLSGGYVLGGGAICMELLTKQGWSSAYSIESVIMQISATLVKGKARVQFGA
          SFKD.F.PFD.P.VRVVS...SGG.VLG..AICME.L.KQ....AYSIES.IMQISATLVKGKA.VQFG.
Retrocopy SFKDTF<PFDTPVVRVVSLGPSGGHVLGRCAICMEILIKQT*TTAYSIESMIMQISATLVKGKA*VQFGS

Parental  N
          N
Retrocopy N

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_358 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_358 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000008889	1 retrocopy	retro_dnov_449,
Macropus eugenii	ENSMEUG00000003718	2 retrocopies	retro_meug_1816, retro_meug_358 ,
Microcebus murinus	ENSMICG00000001427	1 retrocopy	retro_mmur_339,
Rattus norvegicus	ENSRNOG00000020791	1 retrocopy	retro_rnor_297,
Tupaia belangeri	ENSTBEG00000013007	1 retrocopy	retro_tbel_3091,
Tursiops truncatus	ENSTTRG00000013998	1 retrocopy	retro_ttru_975,