RetrogeneDB ID: retro_mmur_345

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_2511:267034..267720(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: METTL1
• Ensembl ID: ENSMICG00000003803
• Aliases: None
• Description: methyltransferase like 1 [Source:HGNC Symbol;Acc:7030]

Sequence

>retro_mmur_345
TCTGAGTTATACCCACAGTTCTTCGCTCCACTCACTCAAAATCAGAGCCACGATGACTCAAAGGAAAGAAAGAAAAGAGA
CCTCAGGCCCAAGTGGAGTTTGCAGACACAGGCTGTGGCTATGGTGGCCTGTTAGTGGAACTGTCACCACTGTTTCCAGA
CACACTGATTCTGGGTCTGGAGATCCAGGTGAAAGTCTCAGACTACGTACAAGACCGATTCGGGCCCTAGCGCAGCTCCT
GGAGGTGGCTTCCAGAACATCGCCTGTCTCCGTAGTAATGCCATGAAGCACCTTCTTAACTTCTTCTGCAAGGGCCAGCT
GACAAGGATGTTCTTCCTGTTTCCTGACCCACATTTCAAACGGACGAAGCACAAGTAGCGAATTATCAGTCCCACATTGC
TGGCAGAATATGCCTATGTGCTGAGAGTTGGGGGGCTGGTATATACCATAACTGATGTGCTGGAACTACACGACTGGATG
TGCACCCATTTTGAAGGGCACCCCCTGTTAGAGCGTGTATCTCTGGAGGAACTGAGCGAGGACCCCATTGTGAGACATCT
AGGCACCTCAACCGAAGAGGGAAAAAAGTTCTACAAAATGGAGGAAAGAATTTCCCAGCCATCTTCCCAAGAATTAAGGA
TCCCGCCCTCCAGACAGTGACCCCCAGTCCCACCCTGCCTGGTCAC

Alignment

ORF - retro_mmur_345 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.88 %
• Parental protein coverage: 82.73 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  SELYPEFFAPLTQNQSHDDSKD-KKEKRAQAQVEFADIGCGYGGLLVELSPLFPDTLILGLEIRVKVSDY
          SELYP.FFAPLTQNQSHDDSK..KKEKR.QAQVEFAD.GCGYGGLLVELSPLFPDTLILGLEI.VKVSDY
Retrocopy SELYPQFFAPLTQNQSHDDSKE<KKEKRPQAQVEFADTGCGYGGLLVELSPLFPDTLILGLEIQVKVSDY

Parental  VQDR-IRALR-AAPGGGFQNIACLRSNAMKHLPNFFRKGQLTKMFFLFPDPHFKRTKHKWRIISPTLLAE
          VQDR.IRAL..AAPGGGFQNIACLRSNAMKHL.NFF.KGQLT.MFFLFPDPHFKRTKHK.RIISPTLLAE
Retrocopy VQDR<IRALA<AAPGGGFQNIACLRSNAMKHLLNFFCKGQLTRMFFLFPDPHFKRTKHK*RIISPTLLAE

Parental  YAYVLRVGGLVYTITDVLELHDWMCTHFEGHPLFERVSLEELTEDPIVRHLGTSTEE-GKKVLRNGGKNF
          YAYVLRVGGLVYTITDVLELHDWMCTHFEGHPL.ERVSLEEL.EDPIVRHLGTSTEE.GKKVL.NGGKNF
Retrocopy YAYVLRVGGLVYTITDVLELHDWMCTHFEGHPLLERVSLEELSEDPIVRHLGTSTEE<GKKVLQNGGKNF

Parental  PAIFRRIQDPALQTVTPSPTLPGH
          PAIF.RI.DPALQTVTPSPTLPGH
Retrocopy PAIFPRIKDPALQTVTPSPTLPGH

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_345 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_345 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006615	1 retrocopy	retro_cjac_2888,
Homo sapiens	ENSG00000037897	1 retrocopy	retro_hsap_4796,
Gorilla gorilla	ENSGGOG00000001411	1 retrocopy	retro_ggor_2985,
Microcebus murinus	ENSMICG00000003803	1 retrocopy	retro_mmur_345 ,
Macaca mulatta	ENSMMUG00000022148	1 retrocopy	retro_mmul_2556,
Nomascus leucogenys	ENSNLEG00000017183	1 retrocopy	retro_nleu_1110,
Pongo abelii	ENSPPYG00000004706	1 retrocopy	retro_pabe_3730,
Tupaia belangeri	ENSTBEG00000011522	1 retrocopy	retro_tbel_3245,