RetrogeneDB ID: retro_meug_1459

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold41293:15744..16223(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE2J2
• Ensembl ID: ENSMEUG00000006403
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2, J2 [Source:HGNC Symbol;Acc:19268]

Sequence

>retro_meug_1459
GGCTATTATCATGGAAAACTAATTTTCCCCAGAGAATTTCCTTTTAAACCTCCTAGTATTTTTAGGATAACTCCCAATGG
AAGATTTAAATGTAATACACGGTTATGTCTTTCAATCACTGATTTCCAGTCTGATACATGGAATCCAGCTTGGTCAGTCT
CAATCTTGACGTGTGTGCAAAACTTTATGGTGGCAAAGGGCCCCAGATTGGGCAGCATAGAAACTTCCTACTACACAAAA
AACCAACTTGCCGCACAGAGTTTGGCATTTAACTTAAAAGACCAAGTATTTTGTGAACTGTTTCCTTAAGTGGTGGAGGA
GATAAAACAAAAATAGCACAAGATGAAATCAGTAGCCGCCCCCAGCCCCTCCCATTGCCAGACGCGGTCCCTCATGGGAA
AACTCACCACGATCGGAATAGGCTTCAGCTCCTAAATGGGCACGTGCCAATGGCTGGCCCCAACCCTGCTGGCCTGCAA

Alignment

ORF - retro_meug_1459 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.14 %
• Parental protein coverage: 59.56 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GYYHGKLIFPREFPFKPPSIYMITPNGRFKCNTRLCLSITDFHPDTWNPAWSVSTILTGLLSFMVEKGPT
          GYYHGKLIFPREFPFKPPSI..ITPNGRFKCNTRLCLSITDF..DTWNPAWSVS.ILT....FMV.KGP.
Retrocopy GYYHGKLIFPREFPFKPPSIFRITPNGRFKCNTRLCLSITDFQSDTWNPAWSVS-ILTCVQNFMVAKGPR

Parental  LGSIETSDYTKRQLAAQSLAFNLKDKVFCELFPEVVEEIKQKQKAQDELSSRPQP-LPLPDVVPDGDTHH
          LGSIETS.YTK.QLAAQSLAFNLKD.VFCELFP.VVEEIKQK..........P.P.LPLPD.VP.G.THH
Retrocopy LGSIETSYYTKNQLAAQSLAFNLKDQVFCELFP*VVEEIKQK*HKMKSVAA-PSP<LPLPDAVPHGKTHH

Parental  GQNGLQLLNGHVPMAGPNHAGLQ
          ..N.LQLLNGHVPMAGPN.AGLQ
Retrocopy DRNRLQLLNGHVPMAGPNPAGLQ

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_1459 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1459 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000006403	1 retrocopy	retro_meug_1459 ,
Mus musculus	ENSMUSG00000023286	1 retrocopy	retro_mmus_1282,
Ochotona princeps	ENSOPRG00000002927	1 retrocopy	retro_opri_669,
Rattus norvegicus	ENSRNOG00000019749	1 retrocopy	retro_rnor_2629,