RetrogeneDB ID: retro_meug_2142

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold94144:2552..3219(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMEUG00000005676
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: AP3M2
• Ensembl ID: ENSMEUG00000013497
• Aliases: None
• Description: adaptor-related protein complex 3, mu 2 subunit [Source:HGNC Symbol;Acc:570]

Sequence

>retro_meug_2142
TCTGCAGTCTTTGCAGAAATTCAAGGGATCATTAATACTTGCATTAAACTTTCTGGGAGACCTGATCTTTCCCTTTCTTT
CATGAATCTAAGGCTTCTAGATGATGTCAGCTTCCACTCCTGCATTCATTTCAAATATTAGGAATTAGAAAGAATCTTAT
TATTTTTTCCTCCAGATGGAAGCTTCCAACTTATTTCCTATTGTGTCAGCTCACAAAATTTAGCAGCAATTCCACTGTGT
GTGAAACACATCAACTTTAAAGAGAATAGCTGTCATGGCAGATTTGATATTATGATTGGACCAAAGAAAAATATGGGGAA
AACCACTGAAGATATCACAATGACTCTTCACATGCCCAAAGTTGTACTGAGAATGAACTTAACTCCTACACAAGACAGCT
ACACATTTGATCCTGTCACCAAGGTATTAACATGAGATATTGGAAAAATTACCCCCCAGAAGCTCCCAAGTCTTAAAGGA
TTGGTGAATTCACAGTCCAGAGCCCCCAAAATCAGAAAAAAATCCAAGCCTCAACATTCATTTCAAGATTTAGCAACTGC
TATTTCAGGCTTGAAAGTAAATCACCTTGACATATTATGGAGAGAAATTCAAGCCATTTAAAGGAGTCAAATACATCATG
AAAGCTAGAAAATTCCAAGCAAGGACA

Alignment

ORF - retro_meug_2142 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.83 %
• Parental protein coverage: 53.48 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  STITAEIQGVIDACVKLTGMPDLTLSFMNPRLLDDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYHVS
          S...AEIQG.I..C.KL.G.PDL.LSFMN.RLLDDVSFH.C..FK..E.ERIL.F.PPDG.F.L.SY.VS
Retrocopy SAVFAEIQGIINTCIKLSGRPDLSLSFMNLRLLDDVSFHSCIHFKY*ELERILLFFPPDGSFQLISYCVS

Parental  AQNLVAIPVYVKHNISFRDSSSLGRFEITVGPKQTMGKTIEGVIVTSQMPKGVLNMSLTPSQGTHTFDPV
          .QNL.AIP..VKH.I.F...S..GRF.I..GPK..MGKT.E....T..MPK.VL.M.LTP.Q...TFDPV
Retrocopy SQNLAAIPLCVKH-INFKENSCHGRFDIMIGPKKNMGKTTEDITMTLHMPKVVLRMNLTPTQDSYTFDPV

Parental  TKLLSWDVGKINPQKLPSLKGTMSLQAGA-SKPDENPTINLQFKIQQL-AISGLKVNRLDM-YGEKYKPF
          TK.L..D.GKI.PQKLPSLKG....Q..A..K...NP..N..FKI.QL.AISGLKVN.LD..YGEK.KPF
Retrocopy TKVLT*DIGKITPQKLPSLKGLVNSQSRA>PKSEKNPSLNIHFKI*QL<AISGLKVNHLDI>YGEKFKPF

Parental  KGIKYMTKAGKFQVRT
          KG.KY..KA.KFQ.RT
Retrocopy KGVKYIMKARKFQART

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_2142 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2142 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	ENSMEUG00000002558	1 retrocopy	retro_meug_43,
Macropus eugenii	ENSMEUG00000003643	1 retrocopy	retro_meug_1894,
Macropus eugenii	ENSMEUG00000013497	1 retrocopy	retro_meug_2142 ,
Tarsius syrichta	ENSTSYG00000005974	1 retrocopy	retro_tsyr_562,