RetrogeneDB ID: retro_meug_106

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_2724:40640..41043(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CHMP2B
• Ensembl ID: ENSMEUG00000012195
• Aliases: None
• Description: charged multivesicular body protein 2B [Source:HGNC Symbol;Acc:24537]

Sequence

>retro_meug_106
ATGGCCTCTCTTTTCAAGGAGAAGACAGTAAATGATGTAATAAAGGAGCAGAATCAAGAGTTATGAGTTGCACAGAGAGC
TATAATGAGAGATTGAGCAGCATTAGAAAAACAAGAAAAACACCTGGAATTAGAAATCAAGAAAATGGTCAAGATTATAA
CAAAGAAGCCTGCAGGATTTTAGCTAAACAGCTTGTGCAACTGAGAAAATAGAAAACTAGAACTTTTGCTTAAGTTCAAA
AGTCACTTCTACGTGTACACAAGCTAAAGTAAGGAAATCTCAGATGAAGATGGTTGGAGCTGTGTCAACTACTGCAAAAA
CAATGCAGGCAGTTAACAAGAAGATGGAGCCACAAAAGACATCACAAACAATGCGGAATTTCCAGAAGGAAAACATGAAA
ATG

Alignment

ORF - retro_meug_106 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.18 %
• Parental protein coverage: 62.56 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MACLFKKKTVDDVIKEQNRELRGTQRAIMRDRAALEKQEKQLKLEIKKMAKI-GNKEVCRVLPKQLVQLR
          MA.LFK.KTV.DVIKEQN.EL...QRAIMRD.AALEKQEK.L.LEIKKM.KI..NKE.CR.L.KQLVQLR
Retrocopy MASLFKEKTVNDVIKEQNQEL*VAQRAIMRD*AALEKQEKHLELEIKKMVKI<YNKEACRILAKQLVQLR

Parental  KQKTRTFA-VSSKVTSMST-AKVMDSQMKMATVMSTTAKTMQAINKKMDPQKTLQT-RTFQ-ENMKM
          K.KTRTFA..SSKVTS..T.AKV..SQMKM....STTAKTMQA.NKKM.PQKT.QT.R.FQ.ENMKM
Retrocopy K*KTRTFA<LSSKVTSTCTQAKVRKSQMKMVGAVSTTAKTMQAVNKKMEPQKTSQTMRNFQKENMKM

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_106 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_106 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 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006615	2 retrocopies	retro_chof_2662, retro_chof_309,
Macropus eugenii	ENSMEUG00000012195	1 retrocopy	retro_meug_106 ,
Macropus eugenii	ENSMEUG00000013531	1 retrocopy	retro_meug_1308,
Myotis lucifugus	ENSMLUG00000009052	1 retrocopy	retro_mluc_1557,
Monodelphis domestica	ENSMODG00000016939	2 retrocopies	retro_mdom_522, retro_mdom_605,
Ictidomys tridecemlineatus	ENSSTOG00000011456	1 retrocopy	retro_itri_1036,