RetrogeneDB ID: retro_meug_2086

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold88556:3290..4417(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PCID2
• Ensembl ID: ENSMEUG00000007451
• Aliases: None
• Description: PCI domain containing 2 [Source:HGNC Symbol;Acc:25653]

Sequence

>retro_meug_2086
ATGGCACACATCACCATTAACCAATATTTGCCTTAAGTGTATGAAGCAATTGATATCAGAGATGGGTTATCTTGTGCAGA
GTTGGCATCTTTTAAGCATCCTCATGTTGTTAATCCCCACCTTCAGCTACCCTCTCCAGAAGGTAAGTGCCAACAACTTT
CAGAACTTCCAAATGATGAAATGTTTGCGGCTCTTATAAGGTGTACCTGTGCAGTGGGAAGCCATGATTTCACTGAAACA
TACAAATGCCAGACTCTGATAGTTTAATCTCTCATGCAAGCATTTTAAGCCCGCAAAGAAGAAGACGAGCTTTGTTCATT
ATTCACTGTATAGCATTTGACCTTCAAAGTTTAGCAAATACTGCTGACCAACATTTGGTGAAAAAAGGAAGTAAAGTTGG
GGATATGTTGGAAAAAGCAGCTCAGTTGCTGATGAGCTGTTTCCAAGACTGTGTTAGAGATACTAGTGCTGGTGAAGATG
GGGGGGAATGCTTTCTGGTCAATGAAATACTTGAAATTTATTTTAAGATCAATACATTTCATTTTTGTAAGCTTTTAATT
AAAGCAATCGATAACTCAAATCTAAATGATGAGTACAGCACAGCACAGAGAGTTACATACAAGTGCTAAGTTGGTTTCAA
GGAGATATTTGACAGTAATTTTAAACAAACTAAAGAATATCTATCATTTACCTTTGAGCCTTGTCACTATACAAATCAGA
AAAATGAAAGAGTGATACTGATATATCTACTGCCAGTAAAAATGCTGTTGGATCATATGCCAACAGTTGAACCTTTGAAA
AAGTATAATCTTCTGCAATGTGTGGGAGTAACCAAAGTTTTGAATGAAGAAAATCTGCTCTTGAATGGAGCTCTGACAAA
ACATGAAACCCTCTTTATTCTCTGTGGTATTTTCCTTATTCTTGAGAGGCTGGAGATCATCACCTATAGAAATCTCTTTA
AGAAAGTATATTTATTACTCAAAATACACCAGCTTTCTCTTGAAGCTTTTATAGTTACCTTAAAATTCATGCAAATTGAA
GATATTGCTATTGATGAAGTTCAGTGCATTTTAGTCAATCTCATATATATGGGTCACATTAAAGGATATGTACCTCATCA
GCATCAA

Alignment

ORF - retro_meug_2086 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.02 %
• Parental protein coverage: 95.74 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAHITINQYLQQVYEAIDTRDGISCAELVSFKHPHVANPRLQLPSPEEKCQQVLEPPYDEMFAAHLRCTY
          MAHITINQYL..VYEAID.RDG.SCAEL.SFKHPHV.NP.LQLPSPE.KCQQ..E.P.DEMFAA..RCT.
Retrocopy MAHITINQYLP*VYEAIDIRDGLSCAELASFKHPHVVNPHLQLPSPEGKCQQLSELPNDEMFAALIRCTC

Parental  AVGNHDFIEAYKCRTVIVQSFLRAFQAHKEENW-ALPIMYAVALDLRVFANNADQQLVKKGRSKVGDMLE
          AVG.HDF.E.YKC.T.IV.S...AF.A.KEE...AL.I....A.DL...AN.ADQ.LVKKG.SKVGDMLE
Retrocopy AVGSHDFTETYKCQTLIV*SLMQAF*ARKEEDE<ALFIIHCIAFDLQSLANTADQHLVKKG-SKVGDMLE

Parental  KAAELLMSCFRVCASDTRAGIDDSKKWGMLFLVNQLFKIYFKINKLHLCKPLIRAIDSSNLKDDYSTAQR
          KAA.LLMSCF..C..DT.AG.D.....G..FLVN....IYFKIN..H.CK.LI.AID.SNL.D.YSTAQR
Retrocopy KAAQLLMSCFQDCVRDTSAGEDG----GECFLVNEILEIYFKINTFHFCKLLIKAIDNSNLNDEYSTAQR

Parental  VTYKYYVGRKAMFDSDFKQAEEYLSFAFEHCHRSSQKNKRMILIYLLPVKMLLGHMPTVELLKKSHLMQF
          VTYK..VG.K..FDS.FKQ..EYLSF.FE.CH...QKN.R.ILIYLLPVKMLL.HMPTVE.LKK..L.Q.
Retrocopy VTYKC*VGFKEIFDSNFKQTKEYLSFTFEPCHYTNQKNERVILIYLLPVKMLLDHMPTVEPLKKYNLLQC

Parental  AEVTKAVSEGNLLLLNEALTKHETFFIRCGIFLILEKLKIITYRNLFKKVYLLLRTHQLSLDAFLVALKF
          ..VTK...E.N.LLLN.ALTKHET.FI.CGIFLILE.L.IITYRNLFKKVYLLL..HQLSL.AF.V.LKF
Retrocopy VGVTKVLNEEN-LLLNGALTKHETLFILCGIFLILERLEIITYRNLFKKVYLLLKIHQLSLEAFIVTLKF

Parental  MQVEDVDIDEVQCILANLIYMGHIKGYISHQHQ
          MQ.ED..IDEVQCIL.NLIYMGHIKGY..HQHQ
Retrocopy MQIEDIAIDEVQCILVNLIYMGHIKGYVPHQHQ

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_2086 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2086 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 3 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000013053	1 retrocopy	retro_etel_1306,
Macropus eugenii	ENSMEUG00000007451	1 retrocopy	retro_meug_2086 ,
Myotis lucifugus	ENSMLUG00000002542	3 retrocopies	retro_mluc_120, retro_mluc_231, retro_mluc_271,