RetrogeneDB ID: retro_mmur_301

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_2304:21311..22226(+)
• Located in intron of: ENSMICG00000004363

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDC16
• Ensembl ID: ENSMICG00000012596
• Aliases: None
• Description: cell division cycle 16 [Source:HGNC Symbol;Acc:1720]

Sequence

>retro_mmur_301
AATGAACATGCTAGAAGACACCTCAGCAAAGCTATGACACTGGAGAAAGACCTATGGGCCTGCATGGATAGCCTATGGGC
ACTCGTTTGTGGTGGAGAGCAAGCACAACCGAGCCATGGCCGCCTACTTCAGGGCAGCGCAGCTAATGAAGGGGTGTCAT
TTGCCAATGCTATATATCAGATTAGAATAAGGTTTGACCAATAACTCAAAACTTGCTGAAAGATTCTTCGGCCAAGCTCT
GAGCATTGCACCCGAAGACCCTTTTGTGATGCACGAGGTTGGAGTGGTTGCCTTTCAGAACGGAGAATGGAAAACAGCAG
AAAAATGGTTTCTTGATGCTTTGGAATAAATTAAAGCCATTGGGAATGAGGTGACAGTTGACAAATGGGAACCCTTGTTG
AACAACTTGGGGCATGTCTGCAGAAAACTTAAAAAGTACGATGAGGCCTTGGATTACCACCGTCAGGTGTTGGTGTTAAT
TCCTCAGAACGCATCCACCTACTCTGCCATAGGCTACATTCACAGTCTGATGGGCAACTTTGAAAATGCCGTGGACTATT
TCCACACGGCCCTTGGTCTTAGGCGAGATGATACATTTTCTGTTACAATGCTTGGTCATTGCATTGAAATGTACACTGGT
GATTCTGAAGCTTATATTGGAGCAGATATTAAAGACAAATTAAAATGTTATGACTTTGATGTGCATACAATGAAGACACT
AAAAAACATTATTTCACCTCCCTGGGATTTCAGGGAATTTGAAGTAGAAAAACAGACTGCAGAAGAAACGGGCTTACGCC
ATTGGAAACCTCAAGCAAAACTCCAGATTCCAGACCTTCCTTGGAAGAAACCTTTGAAATCGAAATGAATGAAAGTGACA
TGATGTTAGAGACATCCATGTCAGACCATAGCACA

Alignment

ORF - retro_mmur_301 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.44 %
• Parental protein coverage: 50.5 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NEHARRYLSKATTLEK-TYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNS
          NEHARR.LSKA.TLEK.TYGPAWIAYGHSF.VES.H..AMAAYF.AAQLMKGCHLPMLYI.LE.GLTNNS
Retrocopy NEHARRHLSKAMTLEK>TYGPAWIAYGHSFVVESKHNRAMAAYFRAAQLMKGCHLPMLYIRLE*GLTNNS

Parental  KLAERFFGQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHV
          KLAERFFGQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALE.IKAIGNEVTVDKWEPLLNNLGHV
Retrocopy KLAERFFGQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALE*IKAIGNEVTVDKWEPLLNNLGHV

Parental  CRKLKKYDEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIE
          CRKLKKYDEALDYHRQ.LVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIE
Retrocopy CRKLKKYDEALDYHRQVLVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIE

Parental  MYIGDSEAYIGADIKDKLKCYDFDVHTMKTLKNIISPPWDFREFEVEKQTAEET-GLTPLETSSKTPDSR
          MY.GDSEAYIGADIKDKLKCYDFDVHTMKTLKNIISPPWDFREFEVEKQTAEET.GLTPLETSSKTPDSR
Retrocopy MYTGDSEAYIGADIKDKLKCYDFDVHTMKTLKNIISPPWDFREFEVEKQTAEET<GLTPLETSSKTPDSR

Parental  PSLEETFEIEMNESDMMLETSMSDHST
          PSLEETFEIEMNESDMMLETSMSDHST
Retrocopy PSLEETFEIEMNESDMMLETSMSDHST

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_301 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_301 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000019010	1 retrocopy	retro_cjac_1884,
Microcebus murinus	ENSMICG00000012596	1 retrocopy	retro_mmur_301 ,
Myotis lucifugus	ENSMLUG00000015888	1 retrocopy	retro_mluc_772,