RetrogeneDB ID: retro_mmur_176

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_1588:29771..30074(-)
• Located in intron of: ENSMICG00000003639

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAB21
• Ensembl ID: ENSMICG00000009168
• Aliases: None
• Description: RAB21, member RAS oncogene family [Source:HGNC Symbol;Acc:18263]

Sequence

>retro_mmur_176
GGCCGGCTGGCGGGCTGAGGCTGAGCCTACTCGTTCAAGGTGGTATTGCTGGGGGAAGGCTGTGTGGGGAAGATGTTGCT
GGTGCTGCGCTACTGCGGGAACAAGTTTAAGGACAAGCACATCACCACTATGCAGGCATCATTCTTAACAAAGAAGTTAA
ATATTGGCGGGAAAAGAGTAAACCTTGCCATATGGGATACAGCAAGTCAAGAGAGATTCCATGCCTTTGGCCCAATTTAC
TACAGAGATTCAAATGGAACTATTTTAGTTTATGACATAACAGATGAAGATTCTTTTCAGAAG

Alignment

ORF - retro_mmur_176 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.31 %
• Parental protein coverage: 57.39 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GGPAAGGPAYSSRRVLLEKGCGGNTPLVLRYXXXXXXXXXXXXXXASFLTKKLNIGGKRVNLAIWDTAGQ
          G..A..G.AYS...VLL..GC.G...LVLRY..............ASFLTKKLNIGGKRVNLAIWDTA.Q
Retrocopy GRLAG*G*AYSFKVVLLGEGCVGKMLLVLRYCGNKFKDKHITTMQASFLTKKLNIGGKRVNLAIWDTASQ

Parental  ERFHALGPIYYRDSNGAILVYDITDEDSFQK
          ERFHA.GPIYYRDSNG.ILVYDITDEDSFQK
Retrocopy ERFHAFGPIYYRDSNGTILVYDITDEDSFQK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_176 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_176 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000004732	1 retrocopy	retro_dord_457,
Microcebus murinus	ENSMICG00000002882	1 retrocopy	retro_mmur_1453,
Microcebus murinus	ENSMICG00000008382	1 retrocopy	retro_mmur_1546,
Microcebus murinus	ENSMICG00000009168	1 retrocopy	retro_mmur_176 ,
Myotis lucifugus	ENSMLUG00000013239	1 retrocopy	retro_mluc_2070,
Ochotona princeps	ENSOPRG00000011037	1 retrocopy	retro_opri_378,