RetrogeneDB ID: retro_mmur_1594

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_89142:1599..1980(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TTPA
• Ensembl ID: ENSMICG00000000305
• Aliases: None
• Description: tocopherol (alpha) transfer protein [Source:HGNC Symbol;Acc:12404]

Sequence

>retro_mmur_1594
ACTCAACGGAATGGAATCAAGGCTATCTTTGATATGGAAGGTTGGCAGTTTTCCCATGCCTTTCAAATTACCCCATCTGT
AGCCAAGAAGATTGCTACAGTACTTACAGATTCCTTTCCATTGAAAGTTCGTGGCATCCATTTGATAAATGAACCAGTAA
TTTTCCATGCTGTCTTTTCCATGATTAAACCATTCCTGACTGAAAAAATTAAAAATCGGATTCATATGCATGGGGACAAT
TACAAACAAAGCTTACTTCAGCACTTCCCAGACATTCTTCCTCTGGAATATGGTGGTGAAGAATTCTCCATGGAGGACGT
TTGTCAGGAGTGGACAAATTTTATAATGAAGTCTGAAGATTATCTCAGTGGCATTTCTGAG

Alignment

ORF - retro_mmur_1594 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.91 %
• Parental protein coverage: 60.48 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TQRNGIKAIFDMEGWQFSHAFQITPSVAKKIATVLTDSFPLKVRGIHLINEPVIFHAVFSMIKPXXXXXX
          TQRNGIKAIFDMEGWQFSHAFQITPSVAKKIATVLTDSFPLKVRGIHLINEPVIFHAVFSMIKP......
Retrocopy TQRNGIKAIFDMEGWQFSHAFQITPSVAKKIATVLTDSFPLKVRGIHLINEPVIFHAVFSMIKPFLTEKI

Parental  XXXIHMHGDNYKQSLLQHFPDILPLEYGGEEFSMEDVCQEWTNFIMKSEDYLSGISE
          ...IHMHGDNYKQSLLQHFPDILPLEYGGEEFSMEDVCQEWTNFIMKSEDYLSGISE
Retrocopy KNRIHMHGDNYKQSLLQHFPDILPLEYGGEEFSMEDVCQEWTNFIMKSEDYLSGISE

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_1594 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1594 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	ENSMICG00000000305	1 retrocopy	retro_mmur_1594 ,
Tarsius syrichta	ENSTSYG00000003052	1 retrocopy	retro_tsyr_852,