RetrogeneDB ID: retro_meug_1683

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold529206:2..300(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDC34
• Ensembl ID: ENSMEUG00000000812
• Aliases: None
• Description: cell division cycle 34 [Source:HGNC Symbol;Acc:1734]

Sequence

>retro_meug_1683
CCACCAACCTTCAGATTCCTGTTTAAAATATGGCAACCCAACATTTCTGAGAATGGAAACATGGCCATTTTGATTCTTCA
TCTTCCTTTAGTTGACCCAAAGAGTGGAGAATTGTTTCTGGAGAGATGACGAATGTCTTAAAACATGAGGACTCTCTTGT
TGAGTGTAACTTTGATGCTTAAGGAACCTAATACTTTCCTTTCTGCCAAAGTGGATGCATTAGATATGTTCAGAAAATAG
GCAGATTTTAAAGGAAAAGGAAAAAGGATTTGCTAAAAACATTAGGAAACAGATTTTG

Alignment

ORF - retro_meug_1683 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.0 %
• Parental protein coverage: 55.93 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PPAFRFLTKMWHPNIYETGDVCISILHPPVDDPQSGELPSERWNPTQNVRTILLSVISLLNEPNTFSPAN
          PP.FRFL.K.W.PNI.E.G...I.ILH.P..DP.SGEL..ER.....N.RT.LLSV...L.EPNTF..A.
Retrocopy PPTFRFLFKIWQPNISENGNMAILILHLPLVDPKSGELFLER*RMS*NMRTLLLSVTLMLKEPNTFLSAK

Parental  VDASVMYRKWKDSKG-KDREYTDIIRKQVL
          VDA..M.RK..D.KG.K.......IRKQ.L
Retrocopy VDALDMFRK*ADFKG>KEKGFAKNIRKQIL

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_1683 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1683 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 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000023874	1 retrocopy	retro_cpor_743,
Macropus eugenii	ENSMEUG00000000812	1 retrocopy	retro_meug_1683 ,
Macropus eugenii	ENSMEUG00000009769	3 retrocopies	retro_meug_360, retro_meug_473, retro_meug_647,
Mus musculus	ENSMUSG00000020307	1 retrocopy	retro_mmus_23,
Ochotona princeps	ENSOPRG00000001017	1 retrocopy	retro_opri_464,
Pan troglodytes	ENSPTRG00000010153	1 retrocopy	retro_ptro_52,
Rattus norvegicus	ENSRNOG00000008348	1 retrocopy	retro_rnor_1464,
Ictidomys tridecemlineatus	ENSSTOG00000023255	1 retrocopy	retro_itri_822,
Tursiops truncatus	ENSTTRG00000000391	2 retrocopies	retro_ttru_1142, retro_ttru_98,