RetrogeneDB ID: retro_meug_1681

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold52670:11843..12118(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: VPS25
• Ensembl ID: ENSMEUG00000011611
• Aliases: None
• Description: vacuolar protein sorting 25 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:28122]

Sequence

>retro_meug_1681
TGCTCTCTGGCATTGTCCTTCTGCTGCCTGCCCTGACAGTCCAGCATGATGGTGATGGATGCGCAGAAAATCCTCTCTTC
AACAACAATGAGCTGCAGAGGAAGCTTCCCATGGAATCTACCTAGACTGTGTGAGAGGGACTGAAGAAGAAAGGAAACCT
GGAGTAGTTGGACAAGGACAAGTCCAGCTTCCTGATCATGTGGTAGAGACCAGAAGAATGGCGGAGCCTCATCTACCAGG
GGGTTTCAAAGAGTGGCCAGAACTACTGTATTTAT

Alignment

ORF - retro_meug_1681 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.12 %
• Parental protein coverage: 52.27 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  CSLVLSFCRLHRQSSMTVMEAQ-ESPLFNNNKLQRKLPMESIQIVLEELRKKGNLEWLDKNKSSFLIMWR
          CSL.LSFC.L..QSSM.VM.AQ.E.PLFNNN.LQRKLPMES...V.E.L.KKGNLE.LDK.KSSFLIMW.
Retrocopy CSLALSFCCLP*QSSMMVMDAQ<ENPLFNNNELQRKLPMEST*TV*EGLKKKGNLE*LDKDKSSFLIMW*

Parental  RPEEWGKLIYQWVSKSGQNNSVF
          RPEEW..LIYQ.VSKSGQN....
Retrocopy RPEEWRSLIYQGVSKSGQNYCIY

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_1681 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1681 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000013276	1 retrocopy	retro_cjac_2959,
Homo sapiens	ENSG00000131475	1 retrocopy	retro_hsap_213,
Gorilla gorilla	ENSGGOG00000016041	1 retrocopy	retro_ggor_284,
Macropus eugenii	ENSMEUG00000011611	2 retrocopies	retro_meug_1247, retro_meug_1681 ,
Macaca mulatta	ENSMMUG00000002149	1 retrocopy	retro_mmul_406,
Nomascus leucogenys	ENSNLEG00000011797	1 retrocopy	retro_nleu_1862,
Ochotona princeps	ENSOPRG00000012574	1 retrocopy	retro_opri_1071,
Pongo abelii	ENSPPYG00000008377	1 retrocopy	retro_pabe_427,
Pan troglodytes	ENSPTRG00000009220	2 retrocopies	retro_ptro_1624, retro_ptro_334,