RetrogeneDB ID: retro_mmur_1546

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_80733:3697..4006(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMICG00000017385
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RAB22A
• Ensembl ID: ENSMICG00000008382
• Aliases: None
• Description: RAB22A, member RAS oncogene family [Source:HGNC Symbol;Acc:9764]

Sequence

>retro_mmur_1546
AAAGAAGAGACATTTTCAACATTAAAGAATTGGGTAAAAAGAGGTTCCCCAGCATGAACCACCTAATCTCGTTGCCCATT
GTAGGAAATAAAATGTGATCTTACTGATGTAAGAGAAGTCATGGAGAGAGATGTGAAGGACTACGCTGACTCCGTTTATA
CAATTTTTATAGAGATCAGTGCAAAAAAAGTGATAAACATAAATGAACCCTTTGTGGAAATGAGTCAAAGAATTTCCTCC
ACTGAAGCCCATCAGCCTTCTGGCAGTAAAGACTTCAGACTTCCAAGACAACCTTCAGAGCCAGAGCGA

Alignment

ORF - retro_mmur_1546 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.75 %
• Parental protein coverage: 53.37 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  KEETFSTLKNWVK-ELRQHGPPNIVVA-IAGNK-CDLIDVREVMERDAKDYADSIHAIFVETSAKNAINI
          KEETFSTLKNWVK.E..QH.PPN..VA.I.GNK.CDL.DVREVMERD.KDYADS...IF.E.SAK..INI
Retrocopy KEETFSTLKNWVK>EVPQHEPPNL-VA>IVGNK>CDLTDVREVMERDVKDYADSVYTIFIEISAKKVINI

Parental  NELFIEISRRIPSTDANPPSGGKGFKLRRQPSEPKR
          NE.F.E.S.RI.ST.A..PSG.K.F.L.RQPSEP.R
Retrocopy NEPFVEMSQRISSTEAHQPSGSKDFRLPRQPSEPER

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_1546 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1546 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 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012646	1 retrocopy	retro_amel_617,
Canis familiaris	ENSCAFG00000012101	1 retrocopy	retro_cfam_501,
Callithrix jacchus	ENSCJAG00000019039	2 retrocopies	retro_cjac_1715, retro_cjac_842,
Microcebus murinus	ENSMICG00000002882	1 retrocopy	retro_mmur_1453,
Microcebus murinus	ENSMICG00000008382	1 retrocopy	retro_mmur_1546 ,
Microcebus murinus	ENSMICG00000009168	1 retrocopy	retro_mmur_176,
Oryctolagus cuniculus	ENSOCUG00000004414	1 retrocopy	retro_ocun_554,
Otolemur garnettii	ENSOGAG00000015779	1 retrocopy	retro_ogar_2851,