RetrogeneDB ID: retro_mmur_1258

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_36673:5365..6326(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SEC61A2
• Ensembl ID: ENSMICG00000004906
• Aliases: None
• Description: Sec61 alpha 2 subunit (S. cerevisiae) [Source:HGNC Symbol;Acc:17702]

Sequence

>retro_mmur_1258
TTGTTTGTAGCTGGTTTGATTATGCTGCTGTTAGATGAGCTGCTACAGAAGGATTACGGCTTGGGGTCTGGTATTTCCCT
CTTTATTGCCACCAACATCTAGGAGACCATTGTCTAGAAGGCCTTTAGTCCCACTACCATTAACACTGGTAGAGGTACCG
AATTTGAGGTGGCAGTCATAGCTCTGTTTCATCTGTTAGCCACCAGGACAAAGTCTGAGCTTTATGGGAGGCTTTTTATC
GGCAGAACGTACCCAATCTCATGAAACTCACTGCTACAGTTTTTGTGTTTGCTGTTATTATATATTTTCAGGGATTTCGT
TTTGACTTGCCCATTAAGTCGGCCCGCTATCGAGGACAGTACAGCAGCTATCCCATCAAGCTCTTCTACACCTCAAACAT
TCCCATTATTCTCCAGTCTGCCTTAGTTTCCAACCTGTATGTTATTTCCCAGATGCTATCTGTTCAATTTAGTGGCAACT
TTTTAGCAAATTTACTGAGACAGTGGGCCGATGTCAGCGGGGGAGGACCTGCTCATTCGTACCCAGTTGGAAGCCTGTGT
TACTACCTTTCTCCTCCTGAGTCCATGCGTGCCATATTTGAGGATCCTGTCCATGTAGTTGTTTATGTCATCTTCATGTT
GGGATCATGTGCATTCTTTTCTAAGACATGGCTAGAGGTGTCTGGTTCCTCAGTCAAAGATGTAGCCAAATAGCTTAAAG
AACAGCAAATGGTAATGAGGGGTCACAGAGATACCTCTATGGTCATGAGCTTAATAGGTACATCCCCACAGCAGCTGCAT
TTGGCAGTTTGTGCATTGGCGCCCTGTCAGTGTTAGCCGACTTCCTAGGGGCCATTGGCTCTGGTACTGGAATTCTGCTT
GCAGTCACTATTATTTATCAGTATTTCGAAATATTTGTTAAGGAACAGGCCGAAGTTGGCGGGATGGGTGCTTTGTTTTT
C

Alignment

ORF - retro_mmur_1258 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.64 %
• Parental protein coverage: 68.08 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LFVAGLIVLLLDELLQKGYGLGSGISLFIATNICETIVWKAFSPTTINTGRGTEFEGAVIALFHLLATRT
          LFVAGLI.LLLDELLQK.YGLGSGISLFIATNI.ETIV.KAFSPTTINTGRGTEFE.AVIALFHLLATRT
Retrocopy LFVAGLIMLLLDELLQKDYGLGSGISLFIATNI*ETIV*KAFSPTTINTGRGTEFEVAVIALFHLLATRT

Parental  DKVRALREAFYRQNLP-NLMNLIATVFVFAVVIYFQXXXXXXXXXXXXXXXXXXXYPIKLFYTSNIPIIL
          .K.......F.....P.NLM.L.ATVFVFAV.IYFQ...................YPIKLFYTSNIPIIL
Retrocopy -KSELYGRLFIGRTYP<NLMKLTATVFVFAVIIYFQGFRFDLPIKSARYRGQYSSYPIKLFYTSNIPIIL

Parental  QSALVSNLYVISQMLSVRFSGNFLVNLLGQWADVSGGGPARSYPVGGLCYYLSPPESMGAIFEDPVHVVV
          QSALVSNLYVISQMLSV.FSGNFL.NLL.QWADVSGGGPA.SYPVG.LCYYLSPPESM.AIFEDPVHVVV
Retrocopy QSALVSNLYVISQMLSVQFSGNFLANLLRQWADVSGGGPAHSYPVGSLCYYLSPPESMRAIFEDPVHVVV

Parental  YIIFMLGSCAFFSKTWIEVSGSSAKDVAKQLKEQQMVMRGHRDTSMV-HELNRYIPTAAAFGGLCIGALS
          Y.IFMLGSCAFFSKTW.EVSGSS.KDVAK.LKEQQMVMRGHRDTSMV.HELNRYIPTAAAFG.LCIGALS
Retrocopy YVIFMLGSCAFFSKTWLEVSGSSVKDVAK*LKEQQMVMRGHRDTSMV<HELNRYIPTAAAFGSLCIGALS

Parental  VLADFLGAIGSGTGILLAVTIIYQYFEIFVKEQAEVGGMGALFF
          VLADFLGAIGSGTGILLAVTIIYQYFEIFVKEQAEVGGMGALFF
Retrocopy VLADFLGAIGSGTGILLAVTIIYQYFEIFVKEQAEVGGMGALFF

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_1258 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1258 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000004906	1 retrocopy	retro_mmur_1258 ,
Otolemur garnettii	ENSOGAG00000005809	1 retrocopy	retro_ogar_2279,