RetrogeneDB ID: retro_mmur_883

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_118804:98..1075(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TSEN2
• Ensembl ID: ENSMICG00000016672
• Aliases: None
• Description: tRNA splicing endonuclease 2 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:28422]

Sequence

>retro_mmur_883
AAGACAAACGTGCCTATCATCACGTCAGAGAAAGTATCAGCATCGTGTAGAATGGGCAGCAAAGCTCATGCGTAGACAGG
GGCAGAATGAGAGTACAGTGCACAGAATCCTTGAGGATTACATAAAACCACTTGAGTATCCTCATATAAAATAGAAATGA
AGAGGTTCAATTGCCTGATGAGCTCAACTCTGAAATGGTTTCCACCATGGAAGGCACAGCAGGGAGAGAGAAACTTTGTG
TGATGAATGGAGACTCTGGACAGTCAGATGCTATAGAGGATCTGAGTGAGCCATCAGACTGCCCACAGGAGGGCTCTGGG
CGGGACCTGCCAACGACAGGCAGCTACCATGACCGCATGGCAGACGATGCTGCACCTCCACCCCAAGTCTGTTGCTGCAA
GGCAGGTGCTGTCATCCTCCAGCGTGGCCCTCACCCTGAGCATGGTGGCAAACACGCGTGTGTCCTCTGTGCGGGGGAGA
GAGGGCCTAACCACGAGTATGTGCTTGTGGAGGAAGTGGTGTGTGACAGGAACGAGAGTGAGGATGCCCCAAATGAGGAA
TTGGTATAAAGACAGAAACTAATATGCAAAAGAAATCCATATAGGATCTTTGAGTATTTGCAACTCAGCCTAGAAGAGGC
CTTCTTCCTGGTCTATGCCTTGGGATGTCTAAGTATCTACTATGAAAAGGAGCCTTTAACGATAGTGAAGCTCTGGAAAG
CTTTCTCTATAGTTTAGCCCATGTTCAGGATGACCTACATGGCCTACCACTACTTCCGAAGCAAGGGCTGGGTGCCCAAA
GTGGGACTCAAGTATAGGACAGATTTATTGCTGTGTCGGAAAGGCCTTCCATTTTACCATGCAAATTATTCTGTTATTAT
TGAGCTAGTTGATGACCATTTTGAAGGCTCTCTCCACAGACCTTTCAGTTGGAAGTCACTGGCTGCCTTGAGCAGAGTTT
CAGTTAATGTCTCTAAG

Alignment

ORF - retro_mmur_883 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.91 %
• Parental protein coverage: 69.68 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KTNMPIITSEK-YQHRVEWAAKLMCRQGQNESTVHRILEDYIKPLEYPHI-NRNEEVQLPDELNSEMVST
          KTN.PIITSEK.YQHRVEWAAKLM.RQGQNESTVHRILEDYIKPLEYPHI.NRNEEVQLPDELNSEMVST
Retrocopy KTNVPIITSEK>YQHRVEWAAKLMRRQGQNESTVHRILEDYIKPLEYPHI>NRNEEVQLPDELNSEMVST

Parental  MEGTARREKLSVMNGDSGQSDAMEDLSRPSGCPQEGSGRDPPTTGSYHNRVADEDAPPPQVCCCKPDAVI
          MEGTA.REKL.VMNGDSGQSDA.EDLS.PS.CPQEGSGRD.PTTGSYH.R.AD..APPPQVCCCK..AVI
Retrocopy MEGTAGREKLCVMNGDSGQSDAIEDLSEPSDCPQEGSGRDLPTTGSYHDRMADDAAPPPQVCCCKAGAVI

Parental  LQRGPHPEHGGKHACILCAGERGPDHEYVLVEEVVCDRNESEDAPNEELVQRKKLICRR-PYRIFEYLQL
          LQRGPHPEHGGKHAC.LCAGERGP.HEYVLVEEVVCDRNESEDAPNEELV.R.KLIC.R.PYRIFEYLQL
Retrocopy LQRGPHPEHGGKHACVLCAGERGPNHEYVLVEEVVCDRNESEDAPNEELV*RQKLICKRNPYRIFEYLQL

Parental  SLEEAFFLVYALGCLSIYYEKEPLTIMKLWKAFSVVQPTFRTTYMAYHYFRSKGWVPKVGLKYGTDLLLY
          SLEEAFFLVYALGCLSIYYEKEPLTI.KLWKAFS.V.P.FR.TYMAYHYFRSKGWVPKVGLKY.TDLLL.
Retrocopy SLEEAFFLVYALGCLSIYYEKEPLTIVKLWKAFSIV*PMFRMTYMAYHYFRSKGWVPKVGLKYRTDLLLC

Parental  RKGPPFYHASYSVIIELVDDNFEGSLRRPFSWKSLAALSRVSVNVSK
          RKG.PFYHA.YSVIIELVDD.FEGSL.RPFSWKSLAALSRVSVNVSK
Retrocopy RKGLPFYHANYSVIIELVDDHFEGSLHRPFSWKSLAALSRVSVNVSK

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_883 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_883 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000154743	1 retrocopy	retro_hsap_3011,
Gorilla gorilla	ENSGGOG00000012488	2 retrocopies	retro_ggor_1826, retro_ggor_2085,
Microcebus murinus	ENSMICG00000016672	1 retrocopy	retro_mmur_883 ,
Macaca mulatta	ENSMMUG00000007195	1 retrocopy	retro_mmul_1925,
Pongo abelii	ENSPPYG00000013647	1 retrocopy	retro_pabe_2495,
Pan troglodytes	ENSPTRG00000014633	1 retrocopy	retro_ptro_2035,