RetrogeneDB ID: retro_ogar_1125

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873536.1:1623444..1624380(-)
• Located in intron of: ENSOGAG00000010774

Retrocopy information

• Ensembl ID: ENSOGAG00000006578
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: NMI
• Ensembl ID: ENSOGAG00000002762
• Aliases: None
• Description: N-myc (and STAT) interactor [Source:HGNC Symbol;Acc:7854]

Sequence

>retro_ogar_1125
ATGGCAGCTGATGAAGATAACAAAAACCAAGTTCGTAAGGAGAATTGGCCAGATGAAGTCATGAAAGATGAACAAAATGA
GGGATTAATTGGTTAAATTACAAAGGAAAATATTCAGCTAAAGAAAGAGATCCAAAAGCTTGAAGCTGAGCTACAAGAGA
CTGCCAGAGCATTCCAGATTAAAGAGGATCTTCCTGAAACAAAGATAAAATTCTTACTTGCTGAGACTTCTGAGAATGAC
AACCAGTTTTCAAATGTCTCCTGTTCATTTCAAGTGAACTCAAAAGTCACTTACAAGCTACAAAAAGGACACGCACTTAT
CACCTTTGAAGAAGAAGAAGTTGCCCAAAATGTGATAAGAATGAGGAAACATCTTGTACAGATAGACAAAGTAGATGTGG
AGGTCATAGCCCAGCCAGTGCCCTTAAACTCAGGAGTCAAATTCCAGGTTCATGTAGAAGTTTCTAAAATGAAAATCAAT
GTTACTGGAATTCCTGATGAGCTGCCTGAAGATCAGATGAGAGACAAGCTAGAACTGAGCTTTTCTAAGTCCCGAAACGG
AAGCGGAGAAGTGGAATGGGTGGAGTATGACAGGCCGTCGGGCAGTGCTGTCATCTCGTTTGTGGAAATGGGAGTTGCTG
ACAAGATTTTGAAAAGGAGAGACTATCTGCTTACTATCAATCGCAGCTGCCATAGAGTTTTGGTTTCTCCATATGTAGAA
GAACACTTGAAAAAGTATCAGGTATTTTCAGGACTATCTAAGAGGACAGTGCTTCTGACTGGAATGGAAGACATTCATCT
GGATGAAGAAATGGTGGAGGATTTAATTAGCATTCACTTCCAGCGGGGGAAGAACGGGGGCGGAGAAGTGGATGTGGTCA
AGTGTGCCCTATACCAGCCTCACATCATGTACTTTGAAGAAGAGACTGATGGGATC

Alignment

ORF - retro_ogar_1125 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.15 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAADEDNKNQVLKENWPNEVMKDEQNEGLIGEITKENIQLKEEIQKLEAELQETARAFQIKEDLPETKIK
          MAADEDNKNQV.KENWP.EVMKDEQNEGLIG.ITKENIQLK.EIQKLEAELQETARAFQIKEDLPETKIK
Retrocopy MAADEDNKNQVRKENWPDEVMKDEQNEGLIG*ITKENIQLKKEIQKLEAELQETARAFQIKEDLPETKIK

Parental  FSLAETPENDNQFSNVSCSFQVNSKVTYKLQKGHALITFEEEEVAQNVIRMRKHLVQIDNVDVEVIAQPV
          F.LAET.ENDNQFSNVSCSFQVNSKVTYKLQKGHALITFEEEEVAQNVIRMRKHLVQID.VDVEVIAQPV
Retrocopy FLLAETSENDNQFSNVSCSFQVNSKVTYKLQKGHALITFEEEEVAQNVIRMRKHLVQIDKVDVEVIAQPV

Parental  PLNSGVKFQVHVEVSKMKIKVTGIPDELPEDQMRDKLELSFSKSRNGGGEVEWVEYDRPSGSAVISFVEM
          PLNSGVKFQVHVEVSKMKI.VTGIPDELPEDQMRDKLELSFSKSRNG.GEVEWVEYDRPSGSAVISFVEM
Retrocopy PLNSGVKFQVHVEVSKMKINVTGIPDELPEDQMRDKLELSFSKSRNGSGEVEWVEYDRPSGSAVISFVEM

Parental  GVADKILKRRDYPLTINRSCHRVLVSPYVEEHLKKYQVFSGLSKRTVLLTGMEDIHLDEEMVEDLISIHF
          GVADKILKRRDY.LTINRSCHRVLVSPYVEEHLKKYQVFSGLSKRTVLLTGMEDIHLDEEMVEDLISIHF
Retrocopy GVADKILKRRDYLLTINRSCHRVLVSPYVEEHLKKYQVFSGLSKRTVLLTGMEDIHLDEEMVEDLISIHF

Parental  QRGKNGGGEVDVVKCALYQPHIVYFEEETDVI
          QRGKNGGGEVDVVKCALYQPHI.YFEEETD.I
Retrocopy QRGKNGGGEVDVVKCALYQPHIMYFEEETDGI

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_1125 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii 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
Monodelphis domestica	ENSMODG00000003594	1 retrocopy	retro_mdom_1501,
Otolemur garnettii	ENSOGAG00000002762	1 retrocopy	retro_ogar_1125 ,