RetrogeneDB ID: retro_ogar_3506

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873999.1:11371..12203(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000029403
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: WARS
• Ensembl ID: ENSOGAG00000032196
• Aliases: None
• Description: tryptophanyl-tRNA synthetase [Source:HGNC Symbol;Acc:12729]

Sequence

>retro_ogar_3506
ATGACGGATGATGAGAAGTATCTCTGGAAGGACCTGACCCTGGACCAGGCCTATGGCTATGCCGTGGAGAATGCCAAGGA
CATCATAGCCTGTGGTTTTGATATCAACAAGACTTTCATATTTTCTGACCTCGACTACATGGGGATGAGCCCAGGCTTCT
ACAGGAATGTAGTGAAGATTCAGAAGCATGTTACCTTCAACCAAGTGAAAGGGATTTTCGGTTTCACTGACAGTGACAGC
ATTGGGAAGATCAGTTTTCCTGCCATCCAGGCTACTCCCTCCTTCAGCAACTCGTTCCCACAGAACTTCCAAGACAGGAC
GGACATCCAGTGCCTTATCCCATGTGCCATTGACCAGGATCCTTACTTTAGAATGACTAGGGACGTTGCCCCTAGGATCA
GCTATCCTAAACAAGCCCTGCTGCACTCGACCTTCTTCCCCGCTCTACAGGGTGCCCAGACCAAAATGAGCGCCAGCGAC
CCCAACTCCTCCATCTTCCTCATTGATACCGCCAAGCAAATCAAGACCAAGGTCAATAAACATGCATTTTCTGGAGGGAG
AGACACCATTGAGGAACACAGGCAGTTTGGGGGCAACTGTGACGTGGATGTGTCTTTTATGTACCTGACCTTCTTCCTCG
AGGATGATGACAAGCTAGAACAGATCAGGAAGGATTATACCAGTGGAGCCATGCTCACCCAGGAGCTCAAGAAGACGCTC
ATAGAGGTTTCTCCAGCCCTTGGTAGCTGAGCACCAGGCACGGTGCAAGGAGGTCACAGATGAAATAGTGAAAGAGTTCA
TGACTCCCCGGAAGCTGTCCTTCGACTTTCAG

Alignment

ORF - retro_ogar_3506 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.17 %
• Parental protein coverage: 58.72 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LDESENLIWKK-TKRQNYGYAVENAKDIIACGFDINKTFIFSDLDYMGMSPGFYRNVVKIQKHVTFNQVK
          ....E...WK..T..Q.YGYAVENAKDIIACGFDINKTFIFSDLDYMGMSPGFYRNVVKIQKHVTFNQVK
Retrocopy MTDDEKYLWKDLTLDQAYGYAVENAKDIIACGFDINKTFIFSDLDYMGMSPGFYRNVVKIQKHVTFNQVK

Parental  GIFGFTDSDSIGKISFPAIQAAPSFSNSFPQIFQDRTDIQCLIPCAIDQDPYFRMTRDVAPRIGYPKPAL
          GIFGFTDSDSIGKISFPAIQA.PSFSNSFPQ.FQDRTDIQCLIPCAIDQDPYFRMTRDVAPRI.YPK.AL
Retrocopy GIFGFTDSDSIGKISFPAIQATPSFSNSFPQNFQDRTDIQCLIPCAIDQDPYFRMTRDVAPRISYPKQAL

Parental  LHSTFFPALQGAQTKMSASDPNSSIFLIDTAKQIKTKVNKHAFSGGRDTIEEHRQFGGNCDVDVSFMYLT
          LHSTFFPALQGAQTKMSASDPNSSIFLIDTAKQIKTKVNKHAFSGGRDTIEEHRQFGGNCDVDVSFMYLT
Retrocopy LHSTFFPALQGAQTKMSASDPNSSIFLIDTAKQIKTKVNKHAFSGGRDTIEEHRQFGGNCDVDVSFMYLT

Parental  FFLEDDDKLEQIRKDYTSGAMLTGELKKTLIEV-LQPLVAEHQARRKEVTDEIVKEFMTPRKLSFDFQ
          FFLEDDDKLEQIRKDYTSGAMLT.ELKKTLIEV.LQPLVAEHQAR.KEVTDEIVKEFMTPRKLSFDFQ
Retrocopy FFLEDDDKLEQIRKDYTSGAMLTQELKKTLIEV>LQPLVAEHQARCKEVTDEIVKEFMTPRKLSFDFQ

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_3506 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000011737	3 retrocopies	retro_mluc_1007, retro_mluc_665, retro_mluc_996,
Otolemur garnettii	ENSOGAG00000032196	3 retrocopies	retro_ogar_1773, retro_ogar_1914, retro_ogar_3506 ,