RetrogeneDB ID: retro_ogar_2554

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873634.1:3923974..3924440(+)
• Located in intron of: ENSOGAG00000005167

Retrocopy information

• Ensembl ID: ENSOGAG00000027698
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: UBE2G1
• Ensembl ID: ENSOGAG00000008795
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2G 1 [Source:HGNC Symbol;Acc:12482]

Sequence

>retro_ogar_2554
GAACTCAACAAAAATCCAGTGGAAGGCTTTTCAGCAGGTTTAATAGATGATAAATGACCTCTACCAATGGGAAGTCCTTA
TTATTGGTCCTCCAGATACACTTTATGAAGGTGGTATTGCTAAGGCTCATCTCACTTTCCCAAAAGATTATTCCCTCTGG
CCTCCTAAAATGAAATTCATTACAGAAATCTGGCACCCAAATGTTGATAAGAATGGTGATGTGTGCATTTCTATTCTTCA
TGAGCCTGGGGAAGATAAATCTGGATATGAAAAGCCAGAGGAACGCAGGCTCCCTATCCATACCGTGGAAACCATCATGA
TTAGTGTCATTTCTATGCTGGCAGACCCTAATGGAGATTCACCTGTTAATGTCGATGCTGCAAAAGAATGGAGGGAAGAC
AGAAATGGAGAATTTAAAAGAAAAGTTGCCCGCTGTGTAAGAAAAAGCCAAGAGATAGCTTTTGAG

Alignment

ORF - retro_ogar_2554 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.59 %
• Parental protein coverage: 91.18 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ELNKNPVEGFSAGLIDD-NDLYRWEVLIIGPPDTLYEGGVFKAHLTFPKDYPLRPPKMKFITEIWHPNVD
          ELNKNPVEGFSAGLIDD.NDLY.WEVLIIGPPDTLYEGG..KAHLTFPKDY.L.PPKMKFITEIWHPNVD
Retrocopy ELNKNPVEGFSAGLIDD>NDLYQWEVLIIGPPDTLYEGGIAKAHLTFPKDYSLWPPKMKFITEIWHPNVD

Parental  KNGDVCISILHEPGEDKYGYEKPEERWLPIHTVETIMISVISMLADPNGDSPANVDAAKEWREDRNGEFK
          KNGDVCISILHEPGEDK.GYEKPEER.LPIHTVETIMISVISMLADPNGDSP.NVDAAKEWREDRNGEFK
Retrocopy KNGDVCISILHEPGEDKSGYEKPEERRLPIHTVETIMISVISMLADPNGDSPVNVDAAKEWREDRNGEFK

Parental  RKVARCVRKSQETAFE
          RKVARCVRKSQE.AFE
Retrocopy RKVARCVRKSQEIAFE

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_2554 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 15 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014433	1 retrocopy	retro_btau_604,
Choloepus hoffmanni	ENSCHOG00000011801	1 retrocopy	retro_chof_2181,
Ciona savignyi	ENSCSAVG00000009498	1 retrocopy	retro_csav_4,
Macropus eugenii	ENSMEUG00000009769	3 retrocopies	retro_meug_360, retro_meug_473, retro_meug_647,
Myotis lucifugus	ENSMLUG00000002118	1 retrocopy	retro_mluc_104,
Oryctolagus cuniculus	ENSOCUG00000000248	1 retrocopy	retro_ocun_152,
Otolemur garnettii	ENSOGAG00000008795	1 retrocopy	retro_ogar_2554 ,
Otolemur garnettii	ENSOGAG00000029045	3 retrocopies	retro_ogar_1211, retro_ogar_2040, retro_ogar_2946,
Rattus norvegicus	ENSRNOG00000010041	3 retrocopies	retro_rnor_2496, retro_rnor_317, retro_rnor_970,
Sarcophilus harrisii	ENSSHAG00000002399	1 retrocopy	retro_shar_75,
Tupaia belangeri	ENSTBEG00000006117	1 retrocopy	retro_tbel_2852,
Tetraodon nigroviridis	ENSTNIG00000008566	1 retrocopy	retro_tnig_11,
Takifugu rubripes	ENSTRUG00000005995	1 retrocopy	retro_trub_4,
Tursiops truncatus	ENSTTRG00000000595	1 retrocopy	retro_ttru_1578,
Drosophila melanogaster	FBgn0058045	1 retrocopy	retro_dmel_6,