RetrogeneDB ID: retro_mmur_1508

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_7203:27676..29343(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EIF4ENIF1
• Ensembl ID: ENSMICG00000005470
• Aliases: None
• Description: eukaryotic translation initiation factor 4E nuclear import factor 1 [Source:HGNC Symbol;Acc:16687]

Sequence

>retro_mmur_1508
TCACATTCAGGAGTTGCACCGTCAGTGGAAGAGGTAGAAGCAGGGCTCAAAGGTTTGAAGGTGGATCAGCAAGTGAAAAA
TTCAACTCCCTTTATGGTAGAACACCTAGAGGAGACTCTGAGTGCTGTAACCAGCAATTGACAACTCAAGAAAGATGGAG
ACATGACTGCATTTAACAAGCTAGTGAGCACCAGGAAGGCAAATGGGACTTTGCCTTCTAAGCCCAAAGTCACTTGAAAT
CTTGAAAGCCATATGATGTCCCCTGCTGAGATTCTAGGGTAGCATGTCCCTAAGAACATCCTACAGGAACTTCTGGGCCA
ACCAATTCAGAGACTCACTTCTTCTAATGTTCTGAGTGGCTTTATGGGGAGCTTAGAGCCTACAACATCTTTACTGGACC
AAAGAGCACCCTCTCCTCCCTTGTCACAGGTGTTTCAAACTCGAGCAGCCTCAGCAGACTATCTTCACCCAAGAATACCA
TCACCAATTGGTTTTATACCAGGACCACAGTTACTCGGAGATCCATTCCAAGGCATGTGAAAACCCATGAGCCCTGTCAC
ATCCCAAATGAGCCAGCTAGAGTTACAACAGGCAGCTTTGGAGGGGGTAGCCTTGCCACATGACCTTGCTGTAAACTTCT
ACCAGCCTGGTTTTGGCAAACCACGGTGGACAGAACCAGAGATGGATTCAGAAACAGGCAACAACGAGTGACCAAGTCAC
CACCACCCGTGCACCGAGAGAATTCCTCTTCCCCAGCCCCTGCTGCCTCCATCACAAGCATGCTGTCTCCTTCCTTTAAC
CCTACTTCAGTGATTCGTAAGATGTATGAGAGCAAAGAGAAAAGCAAGGAAGAGCCAGTATCTGGAAAAACAGCTCTTGG
TGATAGTAAAGAGGATACTCAAAAGGCCTGTAAAGAAAAACTCCTGTCATCCAGCTCTGTACCCAGTGTCGATCGAGACT
CTTCTCCCACTACAAATGCCAAACTGTCAATGTTACAGTGGTCTTCATGTTCCACCCCAATGTCCCAGACCAACTGTTAC
ACCAAAGAACAAGATTATCGACCTAAAGCAACTGGGAGAGAAACACCCACCATGGCATTCCCAGTTCCAGGAACACCTTT
TCTCCGCCCTGTCCACCAAGTTCCTCTCGTCCCCCATGTCCCTATTCTTCAGCCTGCTCACCAGCTTCACCCAGGGTTGG
TACAAAGGATGCTGGCACAAGGAGTACATCCACACCATCTTCCAAGTTTGCTCCAAGCTGGTGTGCTTCCTCCTGGGATG
GATCTGACTCGTTTACAAGGAATATCCAGCCCAATCCTGGGTCAGCCCTTTTACCCTTTACCTGCTGCTAGTCGCCCTCT
CTTAGACCCCCGACCTAGGACACTGCTGCATCTGGCGATGATGCAACAGCAGCTGCAGCACTCAGTTCTGCATCCTCCAG
GCTCTGGTTCCCAGGCAGCAGCTGTCAGTGTTCAAACGATGCCTTAGAACGTGCCCCACTGCTCAGGCCTGCCTCACACG
CACTCCCAGCTGGAGCATCGCCTCAGCCAGAGGAGCAGCCCCCCCCCCCCCGGCCCCGCCAAATGGTTCGGCTTAAATGT
GCTACAACAGCCCTGGCCATCCATGCCTGCCAAAGTCACCAGTGGGGATGAATTGGAATACCGGCAG

Alignment

ORF - retro_mmur_1508 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.11 %
• Parental protein coverage: 58.16 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  THSGVVLSVEEVEAGLKGLKVDQQVKNSTPFMAEHLEETLNAVTSNRQLKKDGDMTAFNKLVSTMKASGT
          .HSGV..SVEEVEAGLKGLKVDQQVKNSTPFM.EHLEETL.AVTSN.QLKKDGDMTAFNKLVST.KA.GT
Retrocopy SHSGVAPSVEEVEAGLKGLKVDQQVKNSTPFMVEHLEETLSAVTSN*QLKKDGDMTAFNKLVSTRKANGT

Parental  LPSQPKVSRNLESHLMSPAEIPGQPVPKNILQELLGQPVQRPTS-HLLSGLMGSLEPTTSLLGQRAPSPP
          LPS.PKV..NLESH.MSPAEI.G..VPKNILQELLGQP.QR.TS...LSG.MGSLEPTTSLL.QRAPSPP
Retrocopy LPSKPKVT*NLESHMMSPAEILG*HVPKNILQELLGQPIQRLTSSNVLSGFMGSLEPTTSLLDQRAPSPP

Parental  LSQVFQTRAASADYLRPRIPSPIGFTPGPQLLGDPFQSMRKPMSPVTAQMSQLELQQAALEGVALPHDLA
          LSQVFQTRAASADYL.PRIPSPIGF.PGPQLLGDPFQ.M.KPMSPVT.QMSQLELQQAALEGVALPHDLA
Retrocopy LSQVFQTRAASADYLHPRIPSPIGFIPGPQLLGDPFQGM*KPMSPVTSQMSQLELQQAALEGVALPHDLA

Parental  VQAANFYQPGFGKPQ-MDRTRDGFRNRQQRVTKSPAPVHRGNSSSPAPAASITSMLSPSFTPTSVIRKMY
          V...NFYQPGFGKP...DRTRDGFRNRQQRVTKSP.PVHR.NSSSPAPAASITSMLSPSF.PTSVIRKMY
Retrocopy V---NFYQPGFGKPR<VDRTRDGFRNRQQRVTKSPPPVHRENSSSPAPAASITSMLSPSFNPTSVIRKMY

Parental  ESKEKSKEEPAPVILALGNYK-NTREADEEKLLSSNSVSSVDRDSSPTTNTKLSTLQRSSCSTPLSQTNR
          ESKEKSKEEP.....ALG..K..T..A..EKLLSS.SV.SVDRDSSPTTN.KLS.LQ.SSCSTP.SQTN.
Retrocopy ESKEKSKEEPVSGKTALGDSKEDTQKACKEKLLSSSSVPSVDRDSSPTTNAKLSMLQWSSCSTPMSQTNC

Parental  YTKEQDYRPKATGRKTPTLASPVPGTPFLRPVHQVPLVPHVPIVRPAHQLHPGLVQRMLAQGVHPQHLPS
          YTKEQDYRPKATGR.TPT.A.PVPGTPFLRPVHQVPLVPHVPI..PAHQLHPGLVQRMLAQGVHP.HLPS
Retrocopy YTKEQDYRPKATGRETPTMAFPVPGTPFLRPVHQVPLVPHVPILQPAHQLHPGLVQRMLAQGVHPHHLPS

Parental  LLQAGVLPPGMDLTHLQGISGPILGQPFYPLPAASHPLLNPRPGTPLHLAMMQQQLQRSVLHPPGSGSQA
          LLQAGVLPPGMDLT.LQGIS.PILGQPFYPLPAAS.PLL.PRP.T.LHLAMMQQQLQ.SVLHPPGSGSQA
Retrocopy LLQAGVLPPGMDLTRLQGISSPILGQPFYPLPAASRPLLDPRPRTLLHLAMMQQQLQHSVLHPPGSGSQA

Parental  AAVSVQTTPQNMPSRSGLPHMHSQLEHRPSQRS-SSPVGLAKWFGSDVLQQPLPSMPAKVISVDELEYRQ
          AAVSVQT.P.N.P..SGLPH.HSQLEHR.SQRS........KWFG..VLQQP.PSMPAKV.S.DELEYRQ
Retrocopy AAVSVQTMP*NVPHCSGLPHTHSQLEHRLSQRSXXXXXXXXKWFGLNVLQQPWPSMPAKVTSGDELEYRQ

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_1508 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1508 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000005470	1 retrocopy	retro_mmur_1508 ,
Otolemur garnettii	ENSOGAG00000012272	1 retrocopy	retro_ogar_1854,