RetrogeneDB ID: retro_mmur_217

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_1831:581216..581602(-)
• Located in intron of: ENSMICG00000000045

Retrocopy information

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

Parental gene information

• Parental gene symbol: RPS24
• Ensembl ID: ENSMICG00000005951
• Aliases: None
• Description: ribosomal protein S24 [Source:HGNC Symbol;Acc:10411]

Sequence

>retro_mmur_217
ATAAATGACACTGTCACTATCCAGACCAGAAAGTTCACGGCCAACCGACTACTTCAGAGGAAACAAATGGTCATCGATGT
CCTTCGGCCTGGGAAGGCCACACTAACAAAGACAGAAATTAGGGGAAAACTAGCCAAAATGTACAAAACCACTCCAGATC
TTATCTTTGTATTTGGATTCAAAACTCACTTTGGTGGTGGCAAGGCAACTGGCTTTCGCATGATGTATGATTCCTAGGAT
TATGCAAAGAAAAATGAACCCAAACGTAGGCTTGCAAGGCACGGGCTGTAGGAGAAGAAAAAGACATCAAGAAAGCAACA
AAAGGAACGCAAGAACAGAATGAAGAAAGTCAGGGGACTGCAAAGGCCAACGTTAGCGCTGGCAAA

Alignment

ORF - retro_mmur_217 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.54 %
• Parental protein coverage: 99.22 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MNDTVTIRTRKFMTNRLLQRKQMVMMVLRPGKATSPKTEIREKLATRY-TPPDAIFVFGFRTHFGGGKTT
          .NDTVTI.TRKF..NRLLQRKQMV..VLRPGKAT..KTEIR.KLA..Y.T.PD.IFVFGF.THFGGGK.T
Retrocopy INDTVTIQTRKFTANRLLQRKQMVIDVLRPGKATLTKTEIRGKLAKMYKTTPDLIFVFGFKTHFGGGKAT

Parental  GFGMIYDSLDYAKKNEPKHRLARHGLYEKKKTSRKQRKERKNRMKKVRG-TAKANVGAGK
          GF.M.YDS.DYAKKNEPK.RLARHGL.EKKKTSRKQ.KERKNRMKKVRG.TAKANV.AGK
Retrocopy GFRMMYDS*DYAKKNEPKRRLARHGL*EKKKTSRKQQKERKNRMKKVRG<TAKANVSAGK

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_217 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_217 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
Equus caballus	ENSECAG00000016939	5 retrocopies	retro_ecab_239, retro_ecab_398, retro_ecab_422, retro_ecab_514, retro_ecab_746,
Gadus morhua	ENSGMOG00000012595	1 retrocopy	retro_gmor_15,
Microcebus murinus	ENSMICG00000005951	7 retrocopies	retro_mmur_1308, retro_mmur_132, retro_mmur_1338, retro_mmur_1636, retro_mmur_217 , retro_mmur_583, retro_mmur_902,
Monodelphis domestica	ENSMODG00000025091	3 retrocopies	retro_mdom_1303, retro_mdom_1706, retro_mdom_1914,
Ornithorhynchus anatinus	ENSOANG00000006329	1 retrocopy	retro_oana_54,
Sarcophilus harrisii	ENSSHAG00000008090	3 retrocopies	retro_shar_276, retro_shar_303, retro_shar_697,
Sus scrofa	ENSSSCG00000010328	8 retrocopies	retro_sscr_1212, retro_sscr_14, retro_sscr_242, retro_sscr_289, retro_sscr_491, retro_sscr_564, retro_sscr_718, retro_sscr_902,