RetrogeneDB ID: retro_mmur_93

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_1224:608898..609349(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RPL10A
• Ensembl ID: ENSMICG00000012458
• Aliases: None
• Description: ribosomal protein L10a [Source:HGNC Symbol;Acc:10299]

Sequence

>retro_mmur_93
GTCCTGGGGGACCAGCAGCACTGCGATGAGGCCAAGGCTGTGGACATTCCCCACATGGACATTGAGGCACTGAAGAAACT
CAACAAAAGTAGACTCTGGTCAAGAAGCTGGCCAAGAAGTATGATGCCTTTTTGGCCCCAGAGTCTCTTACCGAGCAGAT
CCCACCAATCCTGGGCCCAGGCCTAAATAAGGCTGGCAAGTTTCCTGCCCTGCTGACACACAATGAAAACACGGTGGCCA
AAGTTGATGAGGTGAAGTCCACAATCAAGTTCCAGATGAAGAAGGTTCATGTCTGGCCGTGGCTGTTGGGCACGCGAAGA
TGACAGATGATGAGCTGGTGTGCAGCATCCACCTGGCTGTTGACTTTTTGGTGTCATTGCTTAAGAAGAATTGGCATAAT
GTCTTGGCTTTATACATCAAGGGCACCATGGGCAAGTCCCAGCACTTGTAT

Alignment

ORF - retro_mmur_93 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.27 %
• Parental protein coverage: 92.64 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VLGDQQHCDEAKAVDIPHMDIEALKKLNKNK-KLVKKLAKKYDAFLASESLIKQIPRILGPGLNKAGKFP
          VLGDQQHCDEAKAVDIPHMDIEALKKLNK....LVKKLAKKYDAFLA.ESL..QIP.ILGPGLNKAGKFP
Retrocopy VLGDQQHCDEAKAVDIPHMDIEALKKLNKSR<TLVKKLAKKYDAFLAPESLTEQIPPILGPGLNKAGKFP

Parental  SLLTHNENMVAKVDEVKSTIKFQMKKV-LCLAVAVGHVKMTDDELVYNIHLAVNFLVSLLKKNWQNVRAL
          .LLTHNEN.VAKVDEVKSTIKFQMKKV..CLAVAVGH.KMTDDELV..IHLAV.FLVSLLKKNW.NV.AL
Retrocopy ALLTHNENTVAKVDEVKSTIKFQMKKV<SCLAVAVGHAKMTDDELVCSIHLAVDFLVSLLKKNWHNVLAL

Parental  YIKSTMGKPQRLY
          YIK.TMGK.Q.LY
Retrocopy YIKGTMGKSQHLY

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_93 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_93 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 7 parental genes, and 28 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000005760	6 retrocopies	retro_meug_1337, retro_meug_1578, retro_meug_2066, retro_meug_407, retro_meug_541, retro_meug_705,
Microcebus murinus	ENSMICG00000012458	3 retrocopies	retro_mmur_1381, retro_mmur_384, retro_mmur_93 ,
Monodelphis domestica	ENSMODG00000013766	2 retrocopies	retro_mdom_276, retro_mdom_499,
Mus musculus	ENSMUSG00000037805	8 retrocopies	retro_mmus_1110, retro_mmus_1304, retro_mmus_1422, retro_mmus_149, retro_mmus_1737, retro_mmus_2038, retro_mmus_2652, retro_mmus_452,
Ornithorhynchus anatinus	ENSOANG00000014574	1 retrocopy	retro_oana_86,
Sarcophilus harrisii	ENSSHAG00000002047	1 retrocopy	retro_shar_438,
Sus scrofa	ENSSSCG00000001543	7 retrocopies	retro_sscr_1169, retro_sscr_1174, retro_sscr_120, retro_sscr_246, retro_sscr_379, retro_sscr_461, retro_sscr_465,