RetrogeneDB ID: retro_ogar_714

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873526.1:24511214..24511517(+)
• Located in intron of: ENSOGAG00000008469

Retrocopy information

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

Parental gene information

• Parental gene symbol: PLAC8
• Ensembl ID: ENSOGAG00000017232
• Aliases: None
• Description: placenta-specific 8 [Source:HGNC Symbol;Acc:19254]

Sequence

>retro_ogar_714
ATGCAAGCTCAGTCGCCCGTGGTCATTATGACTCAGCCTGGACTTGGCCCCGCACCCCAAAACTCCAACTGGCAGACGGG
CATGTGTGATTGCTTCAGCAACTGTGGAGTCTGTCTCTGTGGCACATTTTGTTTACTGTGCCTTGGATGCCAAATTGCAG
CTGACATAAATGAATGCTGTCTGTGTGGAACAAGTGTTGCGATGAGGACTCTCTACCGCACCGGCTATGGCATCCCTGGA
TCTATCTGTGATGTCTATTTAGTGACTATTTGCTGTCCTCATTGTTCTCTCTGCCAAATCAAG

Alignment

ORF - retro_ogar_714 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.11 %
• Parental protein coverage: 89.29 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MQTQ-PVVVVTQPGLGPAPQNSNWQTGMCDCFSDCGVCLCGTFCFMCLGCQIAADMNECCLCGTSVAMRT
          MQ.Q.PVV..TQPGLGPAPQNSNWQTGMCDCFS.CGVCLCGTFC..CLGCQIAAD.NECCLCGTSVAMRT
Retrocopy MQAQSPVVIMTQPGLGPAPQNSNWQTGMCDCFSNCGVCLCGTFCLLCLGCQIAADINECCLCGTSVAMRT

Parental  LYRTRYGIPGSICDDYLVTMCCPHCSLCQIK
          LYRT.YGIPGSICD.YLVT.CCPHCSLCQIK
Retrocopy LYRTGYGIPGSICDVYLVTICCPHCSLCQIK

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_714 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000145287	1 retrocopy	retro_hsap_1165,
Gorilla gorilla	ENSGGOG00000007464	1 retrocopy	retro_ggor_910,
Monodelphis domestica	ENSMODG00000019309	1 retrocopy	retro_mdom_950,
Mus musculus	ENSMUSG00000029322	1 retrocopy	retro_mmus_1051,
Otolemur garnettii	ENSOGAG00000017232	1 retrocopy	retro_ogar_714 ,
Pan troglodytes	ENSPTRG00000016226	1 retrocopy	retro_ptro_800,
Rattus norvegicus	ENSRNOG00000002217	2 retrocopies	retro_rnor_1489, retro_rnor_1878,