RetrogeneDB ID: retro_mmur_63

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_106:203712..205050(-)
• Located in intron of: ENSMICG00000004000

Retrocopy information

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

Parental gene information

• Parental gene symbol: GPATCH4
• Ensembl ID: ENSMICG00000013624
• Aliases: None
• Description: G patch domain containing 4 [Source:HGNC Symbol;Acc:25982]

Sequence

>retro_mmur_63
TTGAGTGTCACCCCAGAGGTCAAGAGTCATGGGATGAAGTTTGCTGAGGAGCAGCTGCTAAAGCATGGATGGACTCAAGG
CAAAGGCCTGGGCTGGAAGGAGAATGACATGACCCAGGCCCTCAGGGTGACACTGAAGCAGGACACTCATGGGATGGGAC
ATGACCCTGCCAAGGAGTTCACAAACCACTGGTTGAACGAGCTCTTCAACAAGACTGCAGCCAACTTGGTAGTGGAGACT
GGACAGGATGGAGTACAGATAAGGCGCCTTCTACGGAGACCACCTGTCGTAATCTTCCCAAGCCCAACTTGCTGTATCAG
AAGTTTGTGAAGATGGCTACCCTGACTTCAGATGGAGAGAAGCCAGACAAAAACATGGAAAGTTGCAGTGACGATGACAA
CCAGAGGCCCAACCCCCCAAAAATTCTGACGGATGAGATGCTGCTCCAAGCCTGTGAGGGGCCAATAGCACAGAAGGCTG
CCCGTTTTGGGATTACGATGAAGGCCAAGCTTGCTCGGCTGGAGGCCCAGGAGCAGGCCTTCCTGGCTCATCTCAAAGGC
CAAGACTCTCAGGCCTCTCAACCACAGTCAGAGAGCAAGCCCCCCAAAAAGAAGAAAAAGAAAAGGAAGCATAAAGAGGA
GGAAGAGGCTACAGCATCTGAAAGGAATGCAGATGAGAAGCACCCAGAACACACTGACCAGAGCACCAGGAAAAGCAAGA
AGAAGAAAAGGCAACATCAAGAACAAAAGGTCTCAGATAAGAAAGAGGGAACAACTGTAGGGAATGAGGAAGAAGAAGCT
GCAGGAACAAGTGAGCTTAGGGAATTGAAGAGCAGAGAGCAAACCGATCAGTCCCCCAGGAAAAAGAAGAGAAAGAAGCA
GCACCATGAAGAGGAGAAGATGGGAGTCTTGGATGAAGGAGGAAGAGGTAAGGAGGCTACAGGTGCTGTCAGGACAGAGG
AGGTAGAGAGCACAGTGTACACCGACCCGTGCAGCAGAAGCAAGAAGAAACGGTACCATGAGAAGGATTTGAACTTAGAG
GATGAAGAAGTTGGGGAAACTGTTTTGGACAGTGGGACCAGGGACACAGAGAACAGAGCATGCAGTGATAGAGGAAGGAG
AAGCAAGAAGAAAACACGGCGACATCGAGAGGAGGAGGAAGTCGTCAATATAAAGGATGAAAGAGATGAGGGGGATGGCA
GGACTAGGAAAGCAGAGAGCAGAGCACACACTGGCTCAAGCAGCAGAGGTAAGAAGAGGAGGAAACGGCAGTCAGAGGAA
GAAAGCTGGAGTTGGCAATGACCAGAGAACCAAAAAGAAGAAACAGAGGAAGGGAGAC

Alignment

ORF - retro_mmur_63 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.86 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSVTPEVKSHGMKFAEEQLLKHGWTQGKGLGRKENGITQALRVTLKQDTHGVGHDPAKEFTNHWWNELFN
          .SVTPEVKSHGMKFAEEQLLKHGWTQGKGLG.KEN..TQALRVTLKQDTHG.GHDPAKEFTNHW.NELFN
Retrocopy LSVTPEVKSHGMKFAEEQLLKHGWTQGKGLGWKENDMTQALRVTLKQDTHGMGHDPAKEFTNHWLNELFN

Parental  KTAANLVVETGQDGVQIRRL-STETTCRNPPKPNLLYQKFVKTATLTSDGEKPDKDMESCSDDDNQRPNP
          KTAANLVVETGQDGVQIRRL.STETTCRN.PKPNLLYQKFVK.ATLTSDGEKPDK.MESCSDDDNQRPNP
Retrocopy KTAANLVVETGQDGVQIRRL<STETTCRNLPKPNLLYQKFVKMATLTSDGEKPDKNMESCSDDDNQRPNP

Parental  PKILTDEMLLQACEGRTAHKAARLGITMKAKLARLEAQEQAFLAHLKGQDSQASQPQSESKPPKKKKKKR
          PKILTDEMLLQACEG..A.KAAR.GITMKAKLARLEAQEQAFLAHLKGQDSQASQPQSESKPP.......
Retrocopy PKILTDEMLLQACEGPIAQKAARFGITMKAKLARLEAQEQAFLAHLKGQDSQASQPQSESKPPXXXXXXX

Parental  KHKEEEEATASERNADEKHPEHTDQSTRKSKKKKRQHQEQMVSDKREGTTVGNEEEEATGTSELRELKSR
          ........TASERNADEKHPEHTDQSTRKSKKKKRQHQEQ.VSDK.EGTTVGNEEEEA.GTSELRELKSR
Retrocopy XXXXXXXXTASERNADEKHPEHTDQSTRKSKKKKRQHQEQKVSDKKEGTTVGNEEEEAAGTSELRELKSR

Parental  EQTDQSPRKRKRKKKQHHGEEKTGVLDEGGRGK-ATGAVRTEAVESTVYTDPCSRSKKKRHCEKDLNLED
          EQTDQSPRK.KR.KKQHH.EEK.GVLDEGGRGK.ATGAVRTE.VESTVYTDPCSRSKKKR..EKDLNLED
Retrocopy EQTDQSPRKKKR-KKQHHEEEKMGVLDEGGRGKEATGAVRTEEVESTVYTDPCSRSKKKRYHEKDLNLED

Parental  EEVGETVLDSGTRDTENRACSDGGRRSKKKTRRHREEEEVVNVGDERDEGDGRTRKAESSAHTGSSSRGK
          EEVGETVLDSGTRDTENRACSD.GRRSKKKTRRHREEEEVVN..DERDEGDGRTRKAES.AHTGSSSRGK
Retrocopy EEVGETVLDSGTRDTENRACSDRGRRSKKKTRRHREEEEVVNIKDERDEGDGRTRKAESRAHTGSSSRGK

Parental  KRRKRQ-RKKAGVGTDQRTKKK-KQKKGD
          KRRKRQ...K..........KK.KQ.KGD
Retrocopy KRRKRQ>QRKKAGVGNDQRTKKKKQRKGD

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_63 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_63 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.

---

Parental genes homology:

Parental genes homology involve 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000013624	2 retrocopies	retro_mmur_1516, retro_mmur_63 ,
Otolemur garnettii	ENSOGAG00000006698	1 retrocopy	retro_ogar_2053,
Rattus norvegicus	ENSRNOG00000018969	1 retrocopy	retro_rnor_2299,