RetrogeneDB ID: retro_mmur_423

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_2977:29279..29714(+)
• Located in intron of: ENSMICG00000008513

Retrocopy information

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

Parental gene information

• Parental gene symbol: NUS1
• Ensembl ID: ENSMICG00000007831
• Aliases: None
• Description: nuclear undecaprenyl pyrophosphate synthase 1 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:21042]

Sequence

>retro_mmur_423
CGAGGTATTTTCAAAAGAAAGAATTCCAGATTAATAGATGAAATTTTAAAACAACACCAGGAACTTCTGGGCCTAGATTA
TTCGAAATAATCACCTCAGTTTGCAAATAGTAATGACAAAGATGATCAAGTTTTAAATTGCCATTCAGCAGTCAAGGTGC
TGTCCCCAGAAGATGGAAAAGCAGATATTGTGAGAGCTGCTCAGGACTTTTGCCAGTTAGTAACCCATCAGTGAAAGAGA
CACACAGATTTAGATGTAGCTATGTTAGACAGTTTACTTAGTTCAAATGGTTTCCCTGATCCTGATTTAGTTTTGAAGTT
TGGTCCTGTGGACAGCACATTAGGCCTTCTTCCCTGGCATATCAGATTGACTGAGATTATCTCTTTGCCTTCCCACCTAA
ACATCAGTTATGAGGACTTTTTCTCTGCCCTTCGT

Alignment

ORF - retro_mmur_423 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.72 %
• Parental protein coverage: 50.17 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QGIFKRNNSRLMDEILKQQQELLGLDCSKYSPEFANSNDKDDQVLSCHSAVKVLSPEDGKADIVRAAQDF
          .GIFKR.NSRL.DEILKQ.QELLGLD.SK.SP.FANSNDKDDQVL.CHSAVKVLSPEDGKADIVRAAQDF
Retrocopy RGIFKRKNSRLIDEILKQHQELLGLDYSK*SPQFANSNDKDDQVLNCHSAVKVLSPEDGKADIVRAAQDF

Parental  CQLVAQQQKRHTDLDVAMLDSLLSSNGFPDPDLVLKFGPVDSTLGFLPWHIRLTEIISLPSHLNISYEDF
          CQLV..Q.KRHTDLDVAMLDSLLSSNGFPDPDLVLKFGPVDSTLG.LPWHIRLTEIISLPSHLNISYEDF
Retrocopy CQLVTHQ*KRHTDLDVAMLDSLLSSNGFPDPDLVLKFGPVDSTLGLLPWHIRLTEIISLPSHLNISYEDF

Parental  FSALR
          FSALR
Retrocopy FSALR

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_423 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_423 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 11 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000001780	1 retrocopy	retro_dnov_1639,
Erinaceus europaeus	ENSEEUG00000008948	1 retrocopy	retro_eeur_443,
Homo sapiens	ENSG00000153989	4 retrocopies	retro_hsap_1174, retro_hsap_1176, retro_hsap_1289, retro_hsap_4825,
Gorilla gorilla	ENSGGOG00000022321	4 retrocopies	retro_ggor_1012, retro_ggor_914, retro_ggor_915, retro_ggor_993,
Microcebus murinus	ENSMICG00000007831	1 retrocopy	retro_mmur_423 ,
Nomascus leucogenys	ENSNLEG00000013457	1 retrocopy	retro_nleu_2411,
Oryctolagus cuniculus	ENSOCUG00000011553	1 retrocopy	retro_ocun_1713,
Pongo abelii	ENSPPYG00000025886	1 retrocopy	retro_pabe_81,
Pan troglodytes	ENSPTRG00000018547	1 retrocopy	retro_ptro_808,
Tarsius syrichta	ENSTSYG00000003212	1 retrocopy	retro_tsyr_633,
Tursiops truncatus	ENSTTRG00000007352	2 retrocopies	retro_ttru_358, retro_ttru_684,