RetrogeneDB ID: retro_mmur_899

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_12351:10279..10856(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PDCL3
• Ensembl ID: ENSMICG00000000657
• Aliases: None
• Description: phosducin-like 3 [Source:HGNC Symbol;Acc:28860]

Sequence

>retro_mmur_899
ATGCAGGACCCCAACACAGACACTGAGTGGAATGACATCTTATGCAAAAAGGGCATCTTTCCCTCAAAGGAAAGTTTGGA
AGATTTGGAAAAGGAGGCAGAAGAGGAGGAGCAGAGAGTCCTCCAGCAGTCAGTGGTGAAAATATATAAGATATGACTTT
GAAAGAGCTGGAAGATAATGAAGTTGAATTTAATGAGGAGGATGAACGTGCTATTGAAATGTACAGGCAGCAAAGACTGG
CTGAGTGGAAAGCAACTAAATTGAAGAATAAATTTGGAGAAGTTTTGGAGATCTCAGGAAAGGATTATGTTCAAGAAGTT
AACAAAGCCGGTGAGGGCTTGTGGGTAGTCTTTCACCTTTATAAACAAGGGATTCCCCTTTGTGCCCTGATAAATCAGCA
CCTCAGGGACTTGCCAGGAAGTTTCCTGATGTCAAATTTATCAAAGCCATTTCAACAACCTGGATACCCAATTATCCTGA
TAGGAATCTGCCCACGATATTTGTTTACCTCAAAGGTGATATCAAGGCTCAGTTTATTGGTCCTCTGGTGTTTGGAGGCA
TGAACCTGACCAGAGAT

Alignment

ORF - retro_mmur_899 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.31 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MQDPNADTEWNDILRKKGILPSKESLEDLEKEAEEEEQRVLQQSVVKTYE-DMTLEELEDHEDEFNEEDE
          MQDPN.DTEWNDIL.KKGI.PSKESLEDLEKEAEEEEQRVLQQSVVK.Y..DMTL.ELED.E.EFNEEDE
Retrocopy MQDPNTDTEWNDILCKKGIFPSKESLEDLEKEAEEEEQRVLQQSVVKIYK<DMTLKELEDNEVEFNEEDE

Parental  RAIEMYRQQRLAEWKATKLKNKFGEVLEISGKDYVQEVTKAGEGLWVVLHLYKQGIPLCALINQHL-SGL
          RAIEMYRQQRLAEWKATKLKNKFGEVLEISGKDYVQEV.KAGEGLWVV.HLYKQGIPLCALINQHL..GL
Retrocopy RAIEMYRQQRLAEWKATKLKNKFGEVLEISGKDYVQEVNKAGEGLWVVFHLYKQGIPLCALINQHL<QGL

Parental  ARKFPDVKFIKAISTTCIPNYPDRNLPTIFVYLEGDIKAQFIGPLVFGGMNLTRD
          ARKFPDVKFIKAISTT.IPNYPDRNLPTIFVYL.GDIKAQFIGPLVFGGMNLTRD
Retrocopy ARKFPDVKFIKAISTTWIPNYPDRNLPTIFVYLKGDIKAQFIGPLVFGGMNLTRD

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_899 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_899 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
Canis familiaris	ENSCAFG00000002226	1 retrocopy	retro_cfam_1740,
Erinaceus europaeus	ENSEEUG00000000224	1 retrocopy	retro_eeur_506,
Microcebus murinus	ENSMICG00000000657	1 retrocopy	retro_mmur_899 ,
Myotis lucifugus	ENSMLUG00000016446	1 retrocopy	retro_mluc_1443,
Monodelphis domestica	ENSMODG00000001489	1 retrocopy	retro_mdom_734,
Tursiops truncatus	ENSTTRG00000006242	1 retrocopy	retro_ttru_1184,