RetrogeneDB ID: retro_ogar_895

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873530.1:16730352..16731236(+)
• Located in intron of: ENSOGAG00000012427

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000008623
• Aliases: None
• Description: None

Sequence

>retro_ogar_895
ACTTGTGCCACACAGCACATTAAGAATGAACTGGAATGTGTAACCAGTATTTCCTTGGCAAATATAATTAGACAACTAAG
TAGCCTGAGTAAATATGCTGAAGATATATTTGGAGAATTATTCAATGAAGCACATAGTTTTTCCTTCAGAGTTACTCATT
GCAAGAACATGTGGACCATTTATCTGTTAGTGTTACACAGCTTGATCCTAAGGAAGAAGAATTTTCTTTGCAAGATATAA
CGATGAGAAAAGCTTTCTGAAGTTCTACAATTCAAGATCAGCAGCTTTTTGATCGCAAGACTTTGCCTTTTCCTTTACAG
GAGACATATGATGTTTGTGAACAGCCTCCACCTCTCAATATACTCACTCCTTATAGAGATGGTGGTAAAGAAGGTTTGAA
GTTTTATACCAACCCTTCATATTTCTTTGATCTGTGGAAAGAAAAAATGTTGCAAGATACAAAGGATAAGAGGAAGGAAA
AGAGGAAGCAAAAGCAGAAAAATCTAGATCGTCCTCATGAACCAGAAAAAGTGCCAAGAGCACCTCACGACAGGCGGAGA
GAATGGCAGAAGCTGGCCCAAGGTCCAGAGCTGGCTGAAGATGATGCTAATCTCTTACATAAACATATTGAAGTTGCTAA
TGGCCCAGCCTCTCATTTTGAAACAAGACCTCAGACGTACGTGGATCATATGGATGGATCTTACTCACTTTCTGCCTTGC
CATTTAGTCAGATGAGTGAGCTTCTGATTAGAGCTGAGGAAAGGGTCTTAGTCAGACCACACGAGCCACCTCCGCCTCCA
CCGATGCATGGAGCAGGAGATGCGAAACCCATACCCACGTGTATTAGTTCTGCTACAGGTTTGATAGAAAATCGCCCACA
GGCA

Alignment

ORF - retro_ogar_895 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.88 %
• Parental protein coverage: 63.58 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TALPRGIKNELECVTNISLANIIRQLSSLSKYAEDIFGELFNEAHSFSFRVN-SLQERVDRLSVSVTQLD
          T.....IKNELECVT.ISLANIIRQLSSLSKYAEDIFGELFNEAHSFSFRV..SLQE.VD.LSVSVTQLD
Retrocopy TCATQHIKNELECVTSISLANIIRQLSSLSKYAEDIFGELFNEAHSFSFRVT<SLQEHVDHLSVSVTQLD

Parental  PKEEELSLQDITMRKAFRSSTIQDQQLFDRKTLPIPLQETYDVCEQPPPLNILTPYRDDGKEGLKFYTNP
          PKEEE.SLQDITMRKAF.SSTIQDQQLFDRKTLP.PLQETYDVCEQPPPLNILTPYRD.GKEGLKFYTNP
Retrocopy PKEEEFSLQDITMRKAF*SSTIQDQQLFDRKTLPFPLQETYDVCEQPPPLNILTPYRDGGKEGLKFYTNP

Parental  SYFFDLWKEKMLQDTEDKRKEKRKQKQKNLDRPHEPEKVPRAPHDRRREWQKLAQGPELAEDDANLLHKH
          SYFFDLWKEKMLQDT...........QKNLDRPHEPEKVPRAPHDRRREWQKLAQGPELAEDDANLLHKH
Retrocopy SYFFDLWKEKMLQDTXXXXXXXXXXXQKNLDRPHEPEKVPRAPHDRRREWQKLAQGPELAEDDANLLHKH

Parental  IEVANGPASHFETRPQTYVDHMDGSYSLSALPFSQMSELLTRAEERVLVRPHEPPPPPPMHGAGDAKPIP
          IEVANGPASHFETRPQTYVDHMDGSYSLSALPFSQMSELL.RAEERVLVRPHEPPPPPPMHGAGDAKPIP
Retrocopy IEVANGPASHFETRPQTYVDHMDGSYSLSALPFSQMSELLIRAEERVLVRPHEPPPPPPMHGAGDAKPIP

Parental  TCISSATGLIENRPQS
          TCISSATGLIENRPQ.
Retrocopy TCISSATGLIENRPQA

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_895 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000022222	1 retrocopy	retro_ecab_343,
Otolemur garnettii	ENSOGAG00000008623	1 retrocopy	retro_ogar_895 ,
Ictidomys tridecemlineatus	ENSSTOG00000005949	1 retrocopy	retro_itri_1319,