RetrogeneDB ID: retro_mmur_119

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_1345:41938..42582(+)
• Located in intron of: ENSMICG00000013738

Retrocopy information

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

Parental gene information

• Parental gene symbol: SIGMAR1
• Ensembl ID: ENSMICG00000002386
• Aliases: None
• Description: sigma non-opioid intracellular receptor 1 [Source:HGNC Symbol;Acc:8157]

Sequence

>retro_mmur_119
ATGCAGTGGGCGGTGGGCTGGCGGTGGGTGTGGGCCGCACTGCTTCTGGCTGCCATAGCTGTGCTAGCCCAGGTCGTCTG
GCTCTGGCTGGGTCCTCAGAGCTTCGTCTTCTAGCAGGAAGAGATTGCGCAGCTGGCGCGGCAGTACGCTGGGCTGGACC
ACGAGCTGGCCTTCTCTCGGCTGATAGTGCTGCTGCGGTGGCTGCACCCGGGCCACGTGCTGCCCGACAAGGAGCTGCAG
TGGGTGTTCGTTAACGAGGGCGGCTGGATGGGTGCCATGTGCCTCCTGCACGCCTCGCTGTCAGAGTAAGTGCAGCTCTT
CTGCACCGCCCTGGGCTCCCGTGGCCACTCAGGGCGCTACTGGGCTGAAATATAGGACACCATCATCTCTGGCACCTTCC
ACCAGTGGAGAGAGGGCACCACCAAAAGTGAGGTCTTCTACCCAGGGGAGACGGTAGTGCATGGGCCTGGAGAGGCAACT
GCTGTGTAGTGGGGCCCAAACACAGGGATGGTGGAGTATGGCCGGGGTGTCATCCCATCTACCCTGGCCTTCGCACTGGC
TGACACTGTCTTCAGCACCCAGGACTTCCTCACCCTCTTCTACACTCTTTGCTCCTACGCCCGGGCCTCCGACTTGAGCT
CACC

Alignment

ORF - retro_mmur_119 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.13 %
• Parental protein coverage: 96.41 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MQWAVGRRWAWAALLLAAAAVLAQVVWLWLGTQSFVFQQEEIAQLARQYAGLDHELAFSRLIVELRRLHP
          MQWAVG.RW.WAALLLAA.AVLAQVVWLWLG.QSFVF.QEEIAQLARQYAGLDHELAFSRLIV.LR.LHP
Retrocopy MQWAVGWRWVWAALLLAAIAVLAQVVWLWLGPQSFVF*QEEIAQLARQYAGLDHELAFSRLIVLLRWLHP

Parental  GHVLPDEELQWVFVNAGGWMGAMCLLHASLSEYVLLFGTALGSRGHSGRYWAEISDTIISGTFHQWREGT
          GHVLPD.ELQWVFVN.GGWMGAMCLLHASLSE.V.LF.TALGSRGHSGRYWAEI.DTIISGTFHQWREGT
Retrocopy GHVLPDKELQWVFVNEGGWMGAMCLLHASLSE*VQLFCTALGSRGHSGRYWAEI*DTIISGTFHQWREGT

Parental  TKSEVFYPGETVVHGPGEATAVEWGPNTWMVEYGRGVIPSTLAFALADTVFSTQDFLTLFYTLRSYAR-G
          TKSEVFYPGETVVHGPGEATAV.WGPNT.MVEYGRGVIPSTLAFALADTVFSTQDFLTLFYTL.SYAR.G
Retrocopy TKSEVFYPGETVVHGPGEATAV*WGPNTGMVEYGRGVIPSTLAFALADTVFSTQDFLTLFYTLCSYAR<G

Parental  LRLELT
          LRLELT
Retrocopy LRLELT

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_119 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_119 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	ENSCJAG00000008767	1 retrocopy	retro_cjac_155,
Microcebus murinus	ENSMICG00000002386	1 retrocopy	retro_mmur_119 ,
Ochotona princeps	ENSOPRG00000009222	1 retrocopy	retro_opri_691,