RetrogeneDB ID: retro_mmur_1279

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_38693:4392..5084(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPM1H
• Ensembl ID: ENSMICG00000000256
• Aliases: None
• Description: protein phosphatase, Mg2+/Mn2+ dependent, 1H [Source:HGNC Symbol;Acc:18583]

Sequence

>retro_mmur_1279
GTTATCAACGCTGGGAAGAGCACACACACCGAAAACCAAGCCAGCTGTGCGGTGCTCACTGTGAAGAAGAAAGCAGGGGT
CATTACCTCAACCCCAAACAGGAACTCATCCAAGAGACAGTCTTCCCTTCCCAACGGGGAAGGACTGCAACTAAGGGAGA
ACTCGGGAAATCGAGGGCGTCTCCTGCCACTACTGGTCGCTGTTTCGAAGGTCACGCGGGGTCCAGGGCCGCCGTGGTCC
CGTCGCGCCTGCTGCAGCAGCACGTCATGGAGCAGCTGCAGGACATCCTGGAGATCCTGCCGCCCACCTGCCTGGGGGAG
GAGCCCGAGCACACGCCCGCCAACAGCCACGCTCTAACGCGGGCCGCCTAGCTGCGCGGAGGCGTGGGCGCCCCCGGCTC
CCCCGGCACCCCGCCCACGCGCTTCGTCACCGAGAAGAAGATTCCACACGAGTGGCTAGTCATCGGCGCTCTTGAAAGCG
CGTTCAAGGAAATGGACCTACAAATAGAATGAGAGAGGAGTTCATACAATATATCTGGCGGCTGCACAGCCCTCATTGTG
GTTTGCCTTTTGGGGAAGCTATATGTCGCAAATGCTGGGGACAGCAGGGCCATAATCATCAGAAATGGAGAAATCATCCC
CCTGTCTTCAGAATTCACCCCCGAGACAGAGCGCCAGCGACTTCAGTGCCTG

Alignment

ORF - retro_mmur_1279 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.87 %
• Parental protein coverage: 54.63 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VINAGKSTHNEDQASCEVLTVKKKAGAITSTPNRNSSKRRSSLPNGEGLQLRENSEN-EGVSCHYWSLF-
          VINAGKSTH.E.QASC.VLTVKKKAG.ITSTPNRNSSKR.SSLPNGEGLQLRENS.N.EGVSCHYWSLF.
Retrocopy VINAGKSTHTENQASCAVLTVKKKAGVITSTPNRNSSKRQSSLPNGEGLQLRENSGN>EGVSCHYWSLF>

Parental  DGHAGSGAAVVASRLLQQHVTEQLQDIVEILKNSAVLPPTCLGEEPEHAPANSRTLTRAASLRGGVGAPG
          .GHAGS.AAVV.SRLLQQHV.........IL.....LPPTCLGEEPEH.PANS..LTRAA.LRGGVGAPG
Retrocopy EGHAGSRAAVVPSRLLQQHV---MEQLQDILE---ILPPTCLGEEPEHTPANSHALTRAA*LRGGVGAPG

Parental  SPSTPPTRFFTEKKIPHECLVVGALESAFKEMDLQIERERSSYNISGGCTALIVVCLLGKLYVANAGDSR
          SP.TPPTRF.TEKKIPHE.LV.GALESAFKEMDLQIE.ERSSYNISGGCTALIVVCLLGKLYVANAGDSR
Retrocopy SPGTPPTRFVTEKKIPHEWLVIGALESAFKEMDLQIE*ERSSYNISGGCTALIVVCLLGKLYVANAGDSR

Parental  AIIIRNGEIIPMSSEFTPETERQRLQYL
          AIIIRNGEIIP.SSEFTPETERQRLQ.L
Retrocopy AIIIRNGEIIPLSSEFTPETERQRLQCL

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_1279 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1279 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	ENSMICG00000000256	1 retrocopy	retro_mmur_1279 ,