RetrogeneDB ID: retro_mmur_642

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_4374:208658..208970(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PTP4A3
• Ensembl ID: ENSMICG00000006858
• Aliases: None
• Description: protein tyrosine phosphatase type IVA, member 3 [Source:HGNC Symbol;Acc:9636]

Sequence

>retro_mmur_642
GACTGGCCTTTTGATGATGGTGCACCACCGTCTAACCAGATTGTTGATGACTGGTTAAGTCTTGTAAAAATCAAGTTTCG
TGAAGAACCTGGTTGTTGTATTGCTGTTCATTGTGTTGCAGGCCTTGGGAGAGCTCCAGTGCTTGTTGCTCTCGCATTAA
TCGAAGGTGGAATGAAACATGAAGATGCAGTACAATTCATAAGACAAAAGCGGCGTGGAGCTTTTAACAGCAAGCAACTT
TTGTATTTGGAGAAGTATCGTCCTAAGATGCGGCTGCGCTTCAAAGACTCCAATGGTCATAGAAACAACTGT

Alignment

ORF - retro_mmur_642 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.88 %
• Parental protein coverage: 97.2 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DWPFDDGAPPPGKVVEDWLSLLKAKFCEDPGSCVAVHCVAGLGRAPVLVALALIESGMKYEDAIQFIRQK
          DWPFDDGAPP....V.DWLSL.K.KF.E.PG.C.AVHCVAGLGRAPVLVALALIE.GMK.EDA.QFIRQK
Retrocopy DWPFDDGAPPSNQIVDDWLSLVKIKFREEPGCCIAVHCVAGLGRAPVLVALALIEGGMKHEDAVQFIRQK

Parental  RRGAINSKQLTYLEKYRPKQRLRFKDPHTHKTKC
          RRGA.NSKQL.YLEKYRPK.RLRFKD...H...C
Retrocopy RRGAFNSKQLLYLEKYRPKMRLRFKDSNGHRNNC

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_642 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_642 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 5 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000046467	1 retrocopy	retro_btau_380,
Gorilla gorilla	ENSGGOG00000010609	1 retrocopy	retro_ggor_843,
Microcebus murinus	ENSMICG00000001424	5 retrocopies	retro_mmur_1393, retro_mmur_1475, retro_mmur_338, retro_mmur_822, retro_mmur_910,
Microcebus murinus	ENSMICG00000006858	4 retrocopies	retro_mmur_269, retro_mmur_349, retro_mmur_642 , retro_mmur_889,
Macaca mulatta	ENSMMUG00000019392	1 retrocopy	retro_mmul_1132,