RetrogeneDB ID: retro_mmur_1003

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_157495:516..919(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARL14EP
• Ensembl ID: ENSMICG00000011547
• Aliases: None
• Description: ADP-ribosylation factor-like 14 effector protein [Source:HGNC Symbol;Acc:26798]

Sequence

>retro_mmur_1003
AGTGTGGGTGTTGATTCTGAAGACCACCAGAGAAGAAAATCTTAAACAGATGGAAGAATTGCTAAAAGCTTTGAGGTCAT
TACAATTTACAAATCCAAGACAACAAACTACATTTGCTCCAGAAACTGGTAAAAGAGAAAAAAGAAGGCTTACAAAAACT
GTGACCATTGGTTCAGAGAGACAGTGGTATTGGCAAAGAGTAAGGTGTATGACAGCCAGGGTCTCCTGATTTTCAGTGGG
ATGGACCCCTGTGACTGCCTTGATGAAGATGGCTTAGGATGTTTCTGTGCTTGTCCTGCTGTGGTTCTACCAAATGTGGA
GCTGAAGGAGCTGTGATTGCAAGTAGCTGTATAATGAGCAAATAAAAATTGAAGGAGGAGAAATAATTCATAATAAACAT
GCT

Alignment

ORF - retro_mmur_1003 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.14 %
• Parental protein coverage: 51.54 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  SVDVDAEDRQRRKPESDGRTAK-ALRSLQFTNPGKQTEFAPETGKREKRRLTKNATTGSDRQ-VIPAKSK
          SV.VD.ED.QRRK...DGR.AK.ALRSLQFTNP..QT.FAPETGKREKRRLTK..T.GS.RQ.V..AKSK
Retrocopy SVGVDSEDHQRRKS*TDGRIAK>ALRSLQFTNPRQQTTFAPETGKREKRRLTKTVTIGSERQ<VVLAKSK

Parental  VYDSQGLLIFSGMDLCDCLDEDCLGCFYACPA-CGSTKCGAE-CRCDRKWLY-EQIEIEGGEIIHNKHA
          VYDSQGLLIFSGMD.CDCLDED.LGCF.ACPA.CGSTKCGAE...CD.K.LY.EQI.IEGGEIIHNKHA
Retrocopy VYDSQGLLIFSGMDPCDCLDEDGLGCFCACPA<CGSTKCGAE<RSCDCK*LYNEQIKIEGGEIIHNKHA

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_1003 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1003 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 6 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000012417	1 retrocopy	retro_btau_1266,
Choloepus hoffmanni	ENSCHOG00000012698	1 retrocopy	retro_chof_1155,
Felis catus	ENSFCAG00000028620	1 retrocopy	retro_fcat_437,
Microcebus murinus	ENSMICG00000011547	2 retrocopies	retro_mmur_1003 , retro_mmur_131,
Macaca mulatta	ENSMMUG00000017590	2 retrocopies	retro_mmul_1793, retro_mmul_984,
Mus musculus	ENSMUSG00000027122	1 retrocopy	retro_mmus_3319,