RetrogeneDB ID: retro_meug_568

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold138192:2555..3003(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CENPO
• Ensembl ID: ENSMEUG00000010491
• Aliases: None
• Description: centromere protein O [Source:HGNC Symbol;Acc:28152]

Sequence

>retro_meug_568
AGAATACCCATCACTATCTAGAACCCTATGAACTTTGAAGAAAACAAAAAATCTGGAAATGAAGTTGAAAAAAGATAAAG
CTTCTTCTGGCTTTCCATTTAACAAAGTTCAGTGGCAAATTGACCATGAAAGGGGTCAGAATCTGCTTCAACACTGCCTT
TGAAGGAAACGTCGTGGATTCCTATTATGTGGATCTTATCATCAAGAAACCACTTGATGAAATCACCATTCAGGTCCAGT
CTTCATCTCCCTAGAACAGGGAGCCACAAGGCACTTGCAGACTAATTTTCAACACTTCATGTTTAGTTTCAACAAACACC
TAAATACATATTCTGAAAGAAAATACCAGGCAGATCAACTTCAGTGTAGCTTTTCAGCTTTCCTAGCCAGGCCCTTGCAG
AGAAATTCATTGTGTGCTCTGTTGTCATTCACATGTACTGTGGACCCC

Alignment

ORF - retro_meug_568 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.34 %
• Parental protein coverage: 54.87 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  RIPIA-NLEPYE-SLKNSEENLEMKLEKAKA-FFQ-AFHLTGLSGKVTTKGVCICFNTAFEGNILDSYYV
          RIPI...LEPYE..LK....NLEMKL.K.KA.FF..AFHLT..SGK.T.KGV.ICFNTAFEGN..DSYYV
Retrocopy RIPIT<YLEPYE<TLKKTK-NLEMKLKKDKA<FFW<AFHLTKFSGKLTMKGVRICFNTAFEGNVVDSYYV

Parental  DVIIKKPLTI-HRHSVPVFIPLEQIAAKYLETNFQHFMYSLSEHLNAYSGRKYQADQLQCGFSAFLARPL
          D.IIKKPL.....HS.PVFI.LEQ.A...L.TNFQHFM.S...HLN.YS.RKYQADQLQC.FSAFLARPL
Retrocopy DLIIKKPLDE<NHHSGPVFISLEQGATRHLQTNFQHFMFSFNKHLNTYSERKYQADQLQCSFSAFLARPL

Parental  QRNPLCTLLSFTYTMDP
          QRN.LC.LLSFT.T.DP
Retrocopy QRNSLCALLSFTCTVDP

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_568 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_568 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	ENSMEUG00000010491	1 retrocopy	retro_meug_568 ,
Pongo abelii	ENSPPYG00000012596	1 retrocopy	retro_pabe_2764,
Rattus norvegicus	ENSRNOG00000050111	1 retrocopy	retro_rnor_1069,
Sarcophilus harrisii	ENSSHAG00000005861	1 retrocopy	retro_shar_388,