RetrogeneDB ID: retro_meug_1816

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold61518:29..736(-)
• 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_1816
TGCACACAAGATTTTTCTTCTGAAGGTGAAGATGATGAGATGCCTGAGGATACAGAGGACCCAGATCACTATGTAATGAA
AGAAGAGCCAGCTGAGGGGGAAACATCTGAAGATGATGACCTTTGGAAGGAGAACTTGGCCATATTAGAGAAAATTAAAA
AGAACCCAAGGCAAGATTACTTAAGTGGTGCAGGGTCTGACTTGGTGCAGGCCATGGACTGACTGATGAAGCAGCTCAGG
GATATTTACCAATCACAGAATTTCAAAGGCAGAAACTATGTAGTCAAATTAGTAAATGCTAGCCTATATGACTGGAACAT
TAAACTCCTCAAGGCTGACCAGGACAGCATTTTGCACAGTGATCTCCAGATCCTCAAAGAGAAGGAAGAAGCTGACTTAA
TTCTCCTTGACTTTTCTTTTAAAGGCAGTTTTCCTTTTGACACACCATTTGTCAGTTTTGTCTCTTTAGTCCTCTCAGGA
GGGTATGTTCTGGGTGGGTGTGCCAACATCATGGAACTTCTCACCAAGCAAGGCTGAAGCAGTACCTACTCCATAGAGTC
TGCGATTGTGCAAGTCAGTGCCACCCTGGTGAAAGGAAAAGCATGAGTATGGTTTGGAATCAACACAACTCAATACAGTC
TGACAAGAGCTCAGTAGTGCTACAAGTCCCTGGTGTAGATCCAGGAAAAAATGACTGGTACATCCCC

Alignment

ORF - retro_meug_1816 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.31 %
• Parental protein coverage: 62.47 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  CTQEDVSSEDEDEEMPEDTEDLDHYEMKEEEPAEGKKSEDDGIGKENLAILEKIKKNQRQDYLNGAVSGS
          CTQ.D.SSE.ED.EMPEDTED.DHY.MKEE.PAEG..SEDD...KENLAILEKIKKN.RQDYL.GA.S..
Retrocopy CTQ-DFSSEGEDDEMPEDTEDPDHYVMKEE-PAEGETSEDDDLWKENLAILEKIKKNPRQDYLSGAGSDL

Parental  VQATDRLMKELRDIYRSQSFKGGNYAVELVNDSLYDWNVKLLKVDQDSALHNDLQILKEKEGADFILLNF
          VQA.D.LMK.LRDIY.SQ.FKG.NY.V.LVN.SLYDWN.KLLK.DQDS.LH.DLQILKEKE.AD.ILL.F
Retrocopy VQAMD*LMKQLRDIYQSQNFKGRNYVVKLVNASLYDWNIKLLKADQDSILHSDLQILKEKEEADLILLDF

Parental  SFKDNFPFDPPFVRVVSPVLSGGYVLGGGAICMELLTKQGWSSAYSIESVIMQISATLVKGKARVQFGAN
          SFK..FPFD.PFV..VS.VLSGGYVLGG.A..MELLTKQG.SS.YSIES.I.Q.SATLVKGKA.V.FG.N
Retrocopy SFKGSFPFDTPFVSFVSLVLSGGYVLGGCANIMELLTKQG*SSTYSIESAIVQVSATLVKGKA*VWFGIN

Parental  KSQYSLTRAQQSYKSLVQIHE-KNGWYTP
          ..QYSLTRAQ..YKSLV.I.E.KN.WY.P
Retrocopy TTQYSLTRAQ*CYKSLV*IQE<KNDWYIP

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_1816 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1816 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,