RetrogeneDB ID: retro_mmur_826

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_10554:25723..27402(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARNTL
• Ensembl ID: ENSMICG00000001229
• Aliases: None
• Description: aryl hydrocarbon receptor nuclear translocator-like [Source:HGNC Symbol;Acc:701]

Sequence

>retro_mmur_826
ATGGCAGACCAGAGAATGGACATTTCTTCAACCATCAGTGATTTCATGTCCTCGGGCCCCACTGACCTGCTGTCCAGCTC
CCTGGGCACCAGCAGCGTGGACTGCAACCGCAGGTGGAAGGGCAGCTCCACTGACTACCAAGAAATGGACACAGACAAAG
ATGACCCTCATCGAAGGTCAGAATACACAGAGCACCAAGGAAGGCTCAAAAATGCAAGGGAAGCTCACAGTCAGATTGAA
AAGCAGCGTCAGGATAAAATGAACAGTTTTATTGATGAACTGGCTTCTTTGGTACCAAGGTGCAACACCATGTCCAGGAA
ATTAGATGAACTTACTGTACTAAGGATGGCTGTTCAGCACATGAAAACATTAAGAGGTGCCACCAATCCATGTACGGAAG
CAAACTACAAACCCACTTTTCTATCAGATGATGAACTAAAACACCTCAGGGCAGCAGATGGATTTTTATTTGTCGTAGGA
TGTGACCGAGGGAAGATACTCTTTGTCTCAGAGTCTTGTCTTCGAGATCTTCAACTACAGCCAGAAGGATCTGATCGGTC
AGAGTTTGTTTGACGACCTGCATCCGAAAGATATCGCCAAAGTCAAGGAGCAGCTCTCCTCCTCCCACACCACAGCCCGG
GAGCGGCTCACAGCCGCAAAGACTGGGCTTCCAGTTACAACAGATACAACCCCGGGCCATCTCGATTATGTTCTGGAGCA
CATGTTCTTTCTTCTGTAGGATGAAGTGTAACAGGCCTTCGGTAAAGGTTGAAGACAAGGACTTCCCCTCCACCTGCTCA
AAGAAAAAAGCAGATCGAAAAACCTTCTGCACAATACACAGCACAGGCTATTTGAAAAGCTGGTGCCCACAAAGATGGGG
CTGGATGAAGACAATGAGCCGGACAACGAGGGGTGTAACCTCAGCTGCCTTGTCGCAATCGGACGACTACTTTCTCACAC
GGTTCCACAACCGGTGAATGGGGAAATCAGTTTGAAATCCATGGAATATGTTTCTCGGCACGCAATAGACGGCAAGTTTG
TTTTTGTAGACCAGAGGGCAACAGCTATTTTGGCATATTTACCACAAGAACTTCTAGGCACATCGTGTTATGAATATTTT
CACCAAGATGACATAGGACATCTTGCAGAATGTCATAGGCAAGTTGTGCAGATGAGAGAAAAGATCACAACAAATTGCTA
TAAGTTTAAAATCAAAGATGGTTCTTTCATCACACTACAGAGTCGATGGTTCAGTTTCATGAACCCTTGGACCAAGGAAG
TAGAATACATGGTTTCGACCAACACTGTTGTTTTAGCCAACGTCTTGGAAGGCGGGACCCAACCTTCCCACAGCTCACTG
CGCCCCGCACAGCATGGACAGCACGCTGCCCTCTGGAGAAGGTAGCCCAAAGAGGACTCACCCCACTGTTCCAGGGATTC
CAGGGGGAATAAGGGCTGGGGCAGGAAAAACAGGTCAAATGAATGCTGAGGAAATCATGGAAATCCACAGGATAAGAGGG
TCCTCACCTTCCAGCTGTGGCTCCAGCCCCTTGAACATCACGGTACACCTCCCCTCATGCCTCTTCTCCAGGAGGCAAGA
AGATTTTAAATGGAGGGACTCCAGACATTCCTTCCAGCGGCCTACTACCAGGACAGGCTCAGGAGAACCAGGTTATCCA

Alignment

ORF - retro_mmur_826 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.2 %
• Parental protein coverage: 91.4 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 9

Retrocopy - Parental Gene Alignment:

Parental  MADQRMDISSTISDFMSSGPADLLSSSLGTSGVDCNRKRKGSSTDYQESMDTDKDDPHGRLEYTEHQGRI
          MADQRMDISSTISDFMSSGP.DLLSSSLGTS.VDCNR..KGSSTDYQE.MDTDKDDPH.R.EYTEHQGR.
Retrocopy MADQRMDISSTISDFMSSGPTDLLSSSLGTSSVDCNRRWKGSSTDYQE-MDTDKDDPHRRSEYTEHQGRL

Parental  KNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGATNPYTEANYKPT
          KNAREAHSQIEK.R.DKMNSFIDELASLVP.CN.MSRKLD.LTVLRMAVQHMKTLRGATNP.TEANYKPT
Retrocopy KNAREAHSQIEKQRQDKMNSFIDELASLVPRCNTMSRKLDELTVLRMAVQHMKTLRGATNPCTEANYKPT

Parental  FLSDDELKHLILRAADGFLFVVGCDRGKILFVSES-VFKILNYSQNDLIGQSLFDYLHPKDITKVKEQLS
          FLSDDELKHL..RAADGFLFVVGCDRGKILFVSES.VF.I.NYSQ.DLIGQSLFD.LHPKDI.KVKEQLS
Retrocopy FLSDDELKHL--RAADGFLFVVGCDRGKILFVSES>VFEIFNYSQKDLIGQSLFDDLHPKDIAKVKEQLS

Parental  SSDTTPRERLIDAKTGLPVKTDITPG-PSRLCSGARR-SFFCRMKCNRPSVKVEDKDFPSTCSKKKADRK
          SS.TT.RERL..AKTGLPV.TD.TPG.PSRLCSGA...SFFCRMKCNRPSVKVEDKDFPSTCSKKKADRK
Retrocopy SSHTTARERLTAAKTGLPVTTDTTPG<PSRLCSGAHV<SFFCRMKCNRPSVKVEDKDFPSTCSKKKADRK

Parental  SFCTIHSTGYLKSW-PPTKMGLDEDNEPDNEGCNLSCLVAIGRLHSHMVPQPVNGEIRVKSMEYVSRHAI
          .FCTIHSTGYLKSW..PTKMGLDEDNEPDNEGCNLSCLVAIGRL.SH.VPQPVNGEI..KSMEYVSRHAI
Retrocopy TFCTIHSTGYLKSW<VPTKMGLDEDNEPDNEGCNLSCLVAIGRLLSHTVPQPVNGEISLKSMEYVSRHAI

Parental  DGKFVFVDQRATAILAYLPQELLGTSCYEYFHQDDIGHLAECHRQVLQTREKITTNCYKFKIKDGSFITL
          DGKFVFVDQRATAILAYLPQELLGTSCYEYFHQDDIGHLAECHRQV.Q.REKITTNCYKFKIKDGSFITL
Retrocopy DGKFVFVDQRATAILAYLPQELLGTSCYEYFHQDDIGHLAECHRQVVQMREKITTNCYKFKIKDGSFITL

Parental  RSRWFSFMNPWTKEV-YIVSTNTVVLANVLEGG-DPTFPQLTA-SPHSMDSMLPSGEGGPKRTHPTVPGI
          .SRWFSFMNPWTKEV.Y.VSTNTVVLANVLEGG.DPTFPQLTA..PHSMDS.LPSGEG.PKRTHPTVPGI
Retrocopy QSRWFSFMNPWTKEVEYMVSTNTVVLANVLEGG<DPTFPQLTA<APHSMDSTLPSGEGSPKRTHPTVPGI

Parental  PGG-QAGAGKIGRMIAEEIMEIHSQLGSSPSSCGSSPLNIT-STPP-PDASSPGGKKILNGGTPDIPSSG
          PGG..AGAGK.G.M.AEEIMEIH...GSSPSSCGSSPLNIT..TPP.P.ASSPGGKKILNGGTPDIPSSG
Retrocopy PGGIRAGAGKTGQMNAEEIMEIHRIRGSSPSSCGSSPLNIT<GTPP<PHASSPGGKKILNGGTPDIPSSG

Parental  LLPGQAQEN-PGYP
          LLPGQAQEN.PGYP
Retrocopy LLPGQAQEN<PGYP

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_826 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_826 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000001229	1 retrocopy	retro_mmur_826 ,