RetrogeneDB ID: retro_mmur_1132

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_24614:1019..1574(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COMMD10
• Ensembl ID: ENSMICG00000006173
• Aliases: None
• Description: COMM domain containing 10 [Source:HGNC Symbol;Acc:30201]

Sequence

>retro_mmur_1132
TTGATCCTGCGGGAGAGTCCCAGCATGAAAAAAAGCAGTATCACTGATAAATGCAATAGATATAGGAAGATTTCCAAGAT
TGCTCACTTGGATTCTTCAACAACTTCACTTGAAGTCTGAGAGCAATTTCATGAAGAAGAGGAAGAAAAACTTCAAGCTG
CATTTTCTCTAGAGAAACAAGATCTTCATCTAGTTCTTGAAACAGTATCATTTATTTTAGAACAGGCTGTATATTACAAT
GTGAAGCCAACAGCTTTGCAGCAGCAATTAGAGAACATCCATCTTAGATAAGACAAAGCAGAAGCATTTGTGAACAGTTG
GTCTTCTATGGGTCAAGAAACGGTCGAAAAGTTTAGGCAGAGAATTCTCGCTCCCCAAAAGCTAGAGACTGTTGGATGGC
AGCTTAACCTTCAAATGGCTCACTCTGCTCCAGCAAAACTAAAATCTCCTCAAGCTGTGTTACAACTAGGAGTGAGCAAT
GAAGATTCAAAGAAAGTTCTCGAGAAAGTTCTTGTGGAATTCAGTCACAAGGAGGTGTTTGATTTCTATAACAAG

Alignment

ORF - retro_mmur_1132 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.98 %
• Parental protein coverage: 96.84 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LILRESPSM-KKAVSLINAIDIGRFPRLLTRILQKLHLKSESS-FSEEEEEKLQAAFSLEKQDLHLVLET
          LILRESPSM.KKAVSLINAIDIGRFPRLLT.ILQ.LHLKSES..F.EEEEEKLQAAFSLEKQDLHLVLET
Retrocopy LILRESPSM>KKAVSLINAIDIGRFPRLLTWILQQLHLKSESN<FHEEEEEKLQAAFSLEKQDLHLVLET

Parental  ISFILEQAVYHNVKPTALQQQLENIHLRQDKAEAFVNAWSSMGQETVEKFRQRVLAPQKLETVGWQLNLQ
          .SFILEQAVY.NVKPTALQQQLENIHLR.DKAEAFVN.WSSMGQETVEKFRQR.LAPQKLETVGWQLNLQ
Retrocopy VSFILEQAVYYNVKPTALQQQLENIHLR*DKAEAFVNSWSSMGQETVEKFRQRILAPQKLETVGWQLNLQ

Parental  MAHSAQAKLKSPQAVLQLGVSNEDSKN-LEKVLVEFSHKELFDFYNK
          MAHSA.AKLKSPQAVLQLGVSNEDSK..LEKVLVEFSHKE.FDFYNK
Retrocopy MAHSAPAKLKSPQAVLQLGVSNEDSKKVLEKVLVEFSHKEVFDFYNK

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_1132 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1132 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.

---

Parental genes homology:

Parental genes homology involve 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000008311	2 retrocopies	retro_chof_1462, retro_chof_1585,
Cavia porcellus	ENSCPOG00000020474	1 retrocopy	retro_cpor_337,
Loxodonta africana	ENSLAFG00000011885	1 retrocopy	retro_lafr_142,
Microcebus murinus	ENSMICG00000006173	2 retrocopies	retro_mmur_1132 , retro_mmur_607,
Myotis lucifugus	ENSMLUG00000010780	1 retrocopy	retro_mluc_2087,
Sarcophilus harrisii	ENSSHAG00000001698	1 retrocopy	retro_shar_261,
Tupaia belangeri	ENSTBEG00000004061	1 retrocopy	retro_tbel_3381,