RetrogeneDB ID: retro_mmur_1135

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_24807:8288..8891(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TRA2B
• Ensembl ID: ENSMICG00000010611
• Aliases: None
• Description: transformer 2 beta homolog (Drosophila) [Source:HGNC Symbol;Acc:10781]

Sequence

>retro_mmur_1135
TCTCGCTCTCAGTCAAAATCTCCAATGGGAACTCCTGCTCGTGTAAAATTGGAGAGCAGGTCAGGATCTCGTAGTCCATC
AAGGGTTTTCAAACACTCTGAATCCCATTCTCGATCAAGATCAAAATCCAGGTCAAGGTCAAGGAGGCCTTCTCATAGAC
GTTACATTCGATCCAGATTCCACTCTCACTCTCACAGCAGACGATCTTGAAGTAGGTTATATACACCAGAATACCAGTGA
CAAAGGAGCCGAAGTCATTCTCCAATGTGTAACCGGAGAAGACATACAGGCAGCAGGGCGAATCCAGATCCCAATACTTG
TCTTGGAGGGTTTGGTCTCAGTTTGTATACAACAGAGAGAGATCTTCATGGAGTATTTTCTCGATATGGACCATTGAGTG
GTGTCAATGTGGTTTATGATCAGCGAACTGGGAGATCTCAAGGATTTGCTTTTATGTATTTTGAGAGAATAGAGGATTCA
AAGGAGGCTATGGAAAGGGCAAATGGAATGGAGCTGGATGGTGGAAGAATTCGTGTGGATTATTCTTTCACCAAGAGAGC
ACACATGCCTACACCAGGCATCTACATGGGCAGACCAACTCAT

Alignment

ORF - retro_mmur_1135 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.68 %
• Parental protein coverage: 80.33 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SRSGSAHGSGKSAR-HTPARSRSKEDSR---RSRSKSRSRSESRSRSRRSSRRHYTRSRSRSRSH-RRSR
          SRS.S....G..AR.....RS.S...SR....S.S.SRSRS.SRSRSRR.S.R.Y.RSR..S.SH.RRS.
Retrocopy SRSQSKSPMGTPARVKLESRSGSRSPSRVFKHSESHSRSRSKSRSRSRRPSHRRYIRSRFHSHSHSRRS*

Parental  SRSYSRDYRRRHSHSHSPMSTRRRHVGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYD
          SR.Y...Y....S.SHSPM..RRRH.G.RANPDPN.CLG.FGLSLYTTERDL..VFS.YGP...V..VYD
Retrocopy SRLYTPEYQ*QRSRSHSPMCNRRRHTGSRANPDPNTCLGGFGLSLYTTERDLHGVFSRYGPLSGVNVVYD

Parental  QQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFSITKRPHTPTPGIYMGRPTY
          Q...RS.GFAF.YFE...D.KEA.ERANGMELDG.RIRVD.S.TKR.H.PTPGIYMGRPT.
Retrocopy QRTGRSQGFAFMYFERIEDSKEAMERANGMELDGGRIRVDYSFTKRAHMPTPGIYMGRPTH

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_1135 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1135 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 5 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000006856	2 retrocopies	retro_mmur_1252, retro_mmur_661,
Microcebus murinus	ENSMICG00000010611	3 retrocopies	retro_mmur_1102, retro_mmur_1135 , retro_mmur_1410,
Rattus norvegicus	ENSRNOG00000001783	4 retrocopies	retro_rnor_1130, retro_rnor_1915, retro_rnor_2156, retro_rnor_2807,
Ictidomys tridecemlineatus	ENSSTOG00000006720	2 retrocopies	retro_itri_1807, retro_itri_776,
Tarsius syrichta	ENSTSYG00000000388	1 retrocopy	retro_tsyr_1632,