RetrogeneDB ID: retro_meug_2180

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold98663:5792..6065(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE2A
• Ensembl ID: ENSMEUG00000003026
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2A [Source:HGNC Symbol;Acc:12472]

Sequence

>retro_meug_2180
ACATTTAAACTTACAATAGAATTCACAGAAGAATATCCAAAGAAGTCATCTACATTAAGATTTGTCTATAAAATGCTTCA
TCCAAATGTCTATTCAAATGGTAGTATGTACCTGGATACTCTTCAAATTCCTTGGAGTCCAACCTATAACATTTTCTCCA
TTTTGACATCCATACTGTCTTTTGTTGGATGAACCTAATACCAACATCCAGAAAACAGCCAGGCTGCTCAGCTATGCCAG
GAGAACAAGTGAGAATATGAAATGTGAGTTTCA

Alignment

ORF - retro_meug_2180 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.04 %
• Parental protein coverage: 59.87 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TFKLTIEFTEEYPNKPPTVRFVSKMFHPNVYADGSICLDILQNRWSPTYDVSSILTSIQS-LLDEPNPN-
          TFKLTIEFTEEYP.K..T.RFV.KM.HPNVY..GS..LD.LQ..WSPTY...SILTSI.S.LLDEPN.N.
Retrocopy TFKLTIEFTEEYPKKSSTLRFVYKMLHPNVYSNGSMYLDTLQIPWSPTYNIFSILTSILS>LLDEPNTN<

Parental  SPANSQAAQLYQENKREYEKRVS
          .P.NSQAAQL.QENK.EYE..VS
Retrocopy HPENSQAAQLCQENK*EYEM*VS

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_2180 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2180 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 12 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001079	1 retrocopy	retro_chof_1316,
Callithrix jacchus	ENSCJAG00000005098	2 retrocopies	retro_cjac_1180, retro_cjac_3862,
Cavia porcellus	ENSCPOG00000011908	1 retrocopy	retro_cpor_489,
Dasypus novemcinctus	ENSDNOG00000007060	1 retrocopy	retro_dnov_215,
Macropus eugenii	ENSMEUG00000003026	1 retrocopy	retro_meug_2180 ,
Macropus eugenii	ENSMEUG00000004740	1 retrocopy	retro_meug_718,
Monodelphis domestica	ENSMODG00000010209	1 retrocopy	retro_mdom_341,
Oryctolagus cuniculus	ENSOCUG00000016739	1 retrocopy	retro_ocun_183,
Otolemur garnettii	ENSOGAG00000024335	1 retrocopy	retro_ogar_3203,
Procavia capensis	ENSPCAG00000005045	1 retrocopy	retro_pcap_222,
Sus scrofa	ENSSSCG00000012621	1 retrocopy	retro_sscr_29,
Tarsius syrichta	ENSTSYG00000000888	1 retrocopy	retro_tsyr_676,