RetrogeneDB ID: retro_ogar_3065

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873708.1:2069077..2070814(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE3C
• Ensembl ID: ENSOGAG00000000964
• Aliases: None
• Description: ubiquitin protein ligase E3C [Source:HGNC Symbol;Acc:16803]

Sequence

>retro_ogar_3065
TTTGTTTTAACTGTTGGTGAAAATTACTTGGGGGCTCTCTCTGAGGAAGGCCTGCTGGTATATTTACGGGTGCTCCAGAC
CTTTCTTCCTCAGTTACCAGTCTCGCCTGCCAGCGCCAGCTGTCAAGACTCAGCCAGTGACTCTGAGGAGGAGAGTGAAG
AGGCCAAGAAGCCCTCAAGCCCTGAGGATGGTAGACTATCAATACCATACATCACAGAGGAGTGCCTCAAAAAGCTGGAT
ACCAAGCAGCAGACCAATACGCTGTTGAACTTGGTGTGGAGGGACTCGGCCAGTGAAGACGTGTTCACCGGGATGGCCTC
CGTGTGCCACACACTCATGGTGCAGCGCCACATGATGGTGCCCAGAGTCAGGCTCCTCTATAGTTTAGCCTTCAATGCCA
GGTTTCTGAGACATCTTTGGTTTCTGATATCTTCCATGACCACACAGATGATCACTGGATCTCTGCTGCCATTGCTGCAG
GTGATATCCAGGGGCTCTCCTATGTCTTTTGAAGATTCTGGTCGCATCATCCCACTATTTTACCTTTTCAGCTCCTTGTT
TAGCCATTCGCTAATTTCCATACACGATAATGAATTCTTTGGTGATCCCATAGAAGTTGTAGGTCAGAGACAATCATCGA
TGATGCCATTCACTTCGGAGGAGCTGGTGGTGCTGTCTCGGTGCCTGCAGGACGCCTGCCTGGGCATCATCAAGCTGGCC
TACCCAGAGACAAAGCCAGAGGTGCGGGAAGAGTACGTCATAGCGTTTCAGAGTGTTGGAGTCACCACCAGCTCTGAGAT
GCAGCAGTGTATACAGATGGAGCAGAAACGGTGGATTCAGTTATTTAAGGTTATCACCAATCTAGTGAAAATGTTGAAGT
CCAGAGACACGAGGAGAAATTTTTGCCCTCCAAATCACTGGCTGTCAGAACAAGAAGATATTAAAGCAGATAAGGTCACT
CAGCTCTACGTGCCAGCATCCAGACACGTGTGGAGGTTCCGGCACATGGGGAGGATAGGCCCGCTGCAGTCAACTCTGGA
TGTGGGTTTGGAGTCCCCACCACTGTTGGTATCTGAAGAAAGACAACTCGCCATCCTAACAGATCTGCCTTTTGTGGTTC
CCTTTGAGGAGTGAGTAAAGATTTTTCAGAAGTTGATTTATGCAGATAAGCAAGAAGTTCAAGGAGATGGTCCATTTCTG
GATGGAATTAATGTCACAATAAGAAGAAATTATATTTATGAAGATGCTTATGACAAGCTTTCTCCAGAAAATGAGCCTGA
CTTGAAAAAGCGCATCCGCATGCACCTGCTCAATGCCCATGGGCTGGACGAAGCTGGTATCGACGGTGGCGGCATTTTCA
GAGAGTTTTTAAATGAACTACTGAAATCAGGATTTAACCCCAACCAGGGCTTCTTTAAGACTACTAATGAAAGGCTTCTG
TACCCCAACCCAGCTGCTCAGATGCTCGTGGGAGACTCTTTTGCCAGACATTACTACTTCCTGGGCAGAATGCTTGGAAA
GGCTCTCTACGAGAACACGCTGGTGGAGCTACCCTTCGCAGGCTTCTTCCTCTCCAAGCTGCTAGGGACCAGCGCCGACG
TGGACATTCATCACTTGGCCTCCTTAGACCCTGAAGTCTATAAGAACTTGCTGTTTCTCAAGAGCTACGAAGATGATGTG
GAGGAACTTGGGCTGAACTTCACTGTGGTGAACAATGACCTGGGAGAGGCACAGGTG

Alignment

ORF - retro_ogar_3065 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.72 %
• Parental protein coverage: 53.96 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FLTTLKLFYQGALSEEGLLVYLRVLQTFLPQLPVSPASASCQDSASDSEEESEEAKKPSSPEDGRLSIPY
          F..T....Y.GALSEEGLLVYLRVLQTFLPQLPVSPASASCQDSASDSEEESEEAKKPSSPEDGRLSIPY
Retrocopy FVLTVGENYLGALSEEGLLVYLRVLQTFLPQLPVSPASASCQDSASDSEEESEEAKKPSSPEDGRLSIPY

Parental  ITEECLKKLDTKQQTNTLLNLVWRDSASEDVFTGMASVCHTLMVQRRMMVPRVRLLYSLAFNARFLRHLW
          ITEECLKKLDTKQQTNTLLNLVWRDSASEDVFTGMASVCHTLMVQR.MMVPRVRLLYSLAFNARFLRHLW
Retrocopy ITEECLKKLDTKQQTNTLLNLVWRDSASEDVFTGMASVCHTLMVQRHMMVPRVRLLYSLAFNARFLRHLW

Parental  FLISSMTTRMITGSLVPLLQVISRGSPMSFEDSGRIIPLFYLFSSLFSHSLISIHDNEFFGDPIEVVGQR
          FLISSMTT.MITGSL.PLLQVISRGSPMSFEDSGRIIPLFYLFSSLFSHSLISIHDNEFFGDPIEVVGQR
Retrocopy FLISSMTTQMITGSLLPLLQVISRGSPMSFEDSGRIIPLFYLFSSLFSHSLISIHDNEFFGDPIEVVGQR

Parental  QSSMMPFTLEELVVLSRCLRDACLGIIKLAYPETKPEVREEYVIAFQSVGVTTSSEMQQCIQMEQKRWIQ
          QSSMMPFT.EELVVLSRCL.DACLGIIKLAYPETKPEVREEYVIAFQSVGVTTSSEMQQCIQMEQKRWIQ
Retrocopy QSSMMPFTSEELVVLSRCLQDACLGIIKLAYPETKPEVREEYVIAFQSVGVTTSSEMQQCIQMEQKRWIQ

Parental  LFKVITNLVKMLKSRDTRRNFCPPNHWLSEQEDIKADKVTQLYVPASRHVWRFRRMGRIGPLQSTLDVGL
          LFKVITNLVKMLKSRDTRRNFCPPNHWLSEQEDIKADKVTQLYVPASRHVWRFR.MGRIGPLQSTLDVGL
Retrocopy LFKVITNLVKMLKSRDTRRNFCPPNHWLSEQEDIKADKVTQLYVPASRHVWRFRHMGRIGPLQSTLDVGL

Parental  ESPPLSVSEERQLAILTELPFVVPFEERVKIFQKLIYADKQEVQGDGPFLDGINVTIRRNYIYEDAYDKL
          ESPPL.VSEERQLAILT.LPFVVPFEE.VKIFQKLIYADKQEVQGDGPFLDGINVTIRRNYIYEDAYDKL
Retrocopy ESPPLLVSEERQLAILTDLPFVVPFEE*VKIFQKLIYADKQEVQGDGPFLDGINVTIRRNYIYEDAYDKL

Parental  SPENEPDLKKRIRVHLLNAHGLDEAGIDGGGIFREFLNELLKSGFNPNQGFFKTTNEGLLYPNPAAQMLV
          SPENEPDLKKRIR.HLLNAHGLDEAGIDGGGIFREFLNELLKSGFNPNQGFFKTTNE.LLYPNPAAQMLV
Retrocopy SPENEPDLKKRIRMHLLNAHGLDEAGIDGGGIFREFLNELLKSGFNPNQGFFKTTNERLLYPNPAAQMLV

Parental  GDSFARHYYFLGRMLGKALYENMLVELPFAGFFLSKLLGTSADVDIHHLASLDPEVYKNLLFLKSYEDDV
          GDSFARHYYFLGRMLGKALYEN.LVELPFAGFFLSKLLGTSADVDIHHLASLDPEVYKNLLFLKSYEDDV
Retrocopy GDSFARHYYFLGRMLGKALYENTLVELPFAGFFLSKLLGTSADVDIHHLASLDPEVYKNLLFLKSYEDDV

Parental  EELGLNFTVVNNDLGEAQV
          EELGLNFTVVNNDLGEAQV
Retrocopy EELGLNFTVVNNDLGEAQV

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_3065 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000000964	1 retrocopy	retro_ogar_3065 ,
Ictidomys tridecemlineatus	ENSSTOG00000001669	3 retrocopies	retro_itri_1547, retro_itri_1817, retro_itri_1848,