RetrogeneDB ID: retro_mmur_638

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_4349:204510..205293(-)
• Located in intron of: ENSMICG00000014846

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARMC10
• Ensembl ID: ENSMICG00000010160
• Aliases: None
• Description: armadillo repeat containing 10 [Source:HGNC Symbol;Acc:21706]

Sequence

>retro_mmur_638
GACTCAACCAATGGTTCATATGATTGATGTCCTAAATGCTGAACAACTTCAGAAACTTCCTTTACCTACTTGAGTCAACT
GAAGATCCTGTAATTATTGAATAAGCTTTTGGTCACTGTGGGAAACAATGCAGCCTTTTCGGTTAACCAAGCTATTATTT
GTGAATTGGGTGGTATTCCAATTGTTGGAAACAAAATCAACAGCCCTCACCCCAACATTAAAGAGAAAGCTTTAAATGCA
TTAAATAATCTGAGTGTGAATGTTGAAAATCAAATCAAAATAAAGGTATACATCAATCAAGTCTGTGAGGATGTCTTCTC
TGGTTCCCCGAACTCTGTTGTGCAGCTGGCAGGACTGAGATTGTTAACAAACATGACTGTTACCAATGACCACCAGCACA
TGTTTGAGTTACATTACAGACCTGTTCCAGGTTTACTTACTGGAAATGGAAACACCAAGGTTCAAGTTTTGAAACTGCTT
TTGAATTTGTCTGAAAATCCAGCCATGACAGAAGGACTACTCGGTGCCCAAGTGGATTCATCATTCCTTTCCCTTTATGA
TGGACACATAGCAAAGGAGATTCTTCTTCGAGTGCTTATGTTATTTGAGAACATAAATAACTGCCTCAGAATGGAAGGCT
ATTTAGTTGTACAGCCTATTTTCACTAACGGTTCATTGTTTTTCCTGTTTTATGGGGAAGAGTGTGCCCAGAAAATAAGA
GCTTTAGTTCATCACCATGATGCAGAGGTGAAGGAAAAGGCTGTAACAATAATACCAACAATC

Alignment

ORF - retro_mmur_638 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.64 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  DLTNGSYD-DVLNAEQLQKL-LYLLESTEDPVIIE-RALVTVGNNAAFSVNQAIIRELGGIPIVGNKINS
          D.TNGSYD.DVLNAEQLQKL.LYLLESTEDPVIIE...LVTVGNNAAFSVNQAII.ELGGIPIVGNKINS
Retrocopy DSTNGSYD>DVLNAEQLQKL>LYLLESTEDPVIIE>KLLVTVGNNAAFSVNQAIICELGGIPIVGNKINS

Parental  PDPNIKEKALNALNNLSVNVENQIKIKIYINQVCEDVFSGSLNSAVQLAGLRLLTNMTVTNDHQHMFQSY
          P.PNIKEKALNALNNLSVNVENQIKIK.YINQVCEDVFSGS.NS.VQLAGLRLLTNMTVTNDHQHMF...
Retrocopy PHPNIKEKALNALNNLSVNVENQIKIKVYINQVCEDVFSGSPNSVVQLAGLRLLTNMTVTNDHQHMFELH

Parental  ITDLFQVLLTGNGNTKVQVLKLLLNLSENPAMTEGLLGAQVDSSFLSLYDGHVAKEILLRVLTLFQNINN
          .......LLTGNGNTKVQVLKLLLNLSENPAMTEGLLGAQVDSSFLSLYDGH.AKEILLRVL.LF.NINN
Retrocopy YRPV-PGLLTGNGNTKVQVLKLLLNLSENPAMTEGLLGAQVDSSFLSLYDGHIAKEILLRVLMLFENINN

Parental  CLKMEGHLAVQPTFTNGSLFFLLYGEECAQKIRALVHHHDAEVKEKAVTMIPTI
          CL.MEG.L.VQP.FTNGSLFFL.YGEECAQKIRALVHHHDAEVKEKAVT.IPTI
Retrocopy CLRMEGYLVVQPIFTNGSLFFLFYGEECAQKIRALVHHHDAEVKEKAVTIIPTI

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_638 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_638 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 9 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000004247	1 retrocopy	retro_cfam_1264,
Choloepus hoffmanni	ENSCHOG00000002095	1 retrocopy	retro_chof_2665,
Callithrix jacchus	ENSCJAG00000021208	2 retrocopies	retro_cjac_1758, retro_cjac_2104,
Cavia porcellus	ENSCPOG00000019936	1 retrocopy	retro_cpor_1022,
Homo sapiens	ENSG00000170632	1 retrocopy	retro_hsap_2815,
Microcebus murinus	ENSMICG00000010160	1 retrocopy	retro_mmur_638 ,
Myotis lucifugus	ENSMLUG00000006088	3 retrocopies	retro_mluc_1587, retro_mluc_1825, retro_mluc_624,
Mus musculus	ENSMUSG00000038525	3 retrocopies	retro_mmus_1292, retro_mmus_2256, retro_mmus_969,
Vicugna pacos	ENSVPAG00000008914	1 retrocopy	retro_vpac_19,