RetrogeneDB ID: retro_ogar_1914

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873573.1:7837387..7838169(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

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

Sequence

>retro_ogar_1914
ACCCTGGGACAGGCCTATGGCTATGCTGTGGAGAACGCCAAGGACATCATTTCCTGTGGCTTTGATATCTCAAGACTTTC
ATATTTTCTGACCTCAACTGCATGGGGATGAGCTCAAGCTTCTCCAAGAATGTGGTGAAGACTCAGGAGCATGTTACCTT
CAACCAAGTAGAAGGGATTTTCAGCTTCACTGACGGTGACAGCATCAGGAAGATCAGTTTTCCTGCCATCCAGGCTGCTC
CCTCCTTCAGCAGCTCGTTTTCACAGGTCTTCTAAACAGGACAGATATCCAGTGCCTTATCTCATCAGAATCCTTACTTT
AGAATGATGAAGGATGTTGCCCCAGAATCGGCTATCCTAAACCAGCCCTGATGCCTCAACCTTCTTCCCCTCCCTGCAGG
GCGCCCAGACCAAAATGAGCACCAGCAGCCCCAACTCCTTCATCTTCCTCATTGATACCACCAAGTACATCAAGACCAAG
GTCAATAAACATGCATTTTCTGGGGGGAGAGACACCGTTGAGGAGCACCAGCAGTTTGGGGGAAACTGTGATATGGACAC
GTCTTTCATGTACCAACCTTCTTCCTTGAGGATGACCACAAGCTAGAGCAGATTGAGAAGGATCATACCAGTGGAGCTGT
GCTCACCGGAGAGCTCAGAAAGACACTCACAGAGGTTCTGCAGCCCTTGATTACTGAGTACCACCAGGCCTGGGGCAATG
AGGTCGCAGACAAGATTGTGAAAGTGTTCATGACTCCCCAGAAGCTGTCCTTCGACTTTCAG

Alignment

ORF - retro_ogar_1914 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.37 %
• Parental protein coverage: 56.38 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  TKRQNYGYAVENAKDIIACGFDIN-KTFIFSDLDYMGMSPGFYRNVVKIQKHVTFNQVKGIFGFTDSDSI
          T..Q.YGYAVENAKDII.CGFDI..KTFIFSDL..MGMS..F..NVVK.Q.HVTFNQV.GIF.FTD.DSI
Retrocopy TLGQAYGYAVENAKDIISCGFDIS<KTFIFSDLNCMGMSSSFSKNVVKTQEHVTFNQVEGIFSFTDGDSI

Parental  GKISFPAIQAAPSFSNSFPQIF-QDRTDIQCLIPCAID-QDPYFRMTRDVAP-RIGYPKPALLH-STFFP
          .KISFPAIQAAPSFS.SF.Q.F...RTD....I.C.I..Q.PYFRM..DVAP.RIGYPKPAL...STFFP
Retrocopy RKISFPAIQAAPSFSSSFSQVF<LNRTD----IQCLIS>QNPYFRMMKDVAP<RIGYPKPALMP<STFFP

Parental  ALQGAQTKMSASDPNSSIFLIDTAKQIKTKVNKHAFSGGRDTIEEHRQFGGNCDVDVSFMYL-TFFLEDD
          .LQGAQTKMS.S.PNS.IFLIDT.K.IKTKVNKHAFSGGRDT.EEH.QFGGNCD.D.SFMY..TFFLEDD
Retrocopy SLQGAQTKMSTSSPNSFIFLIDTTKYIKTKVNKHAFSGGRDTVEEHQQFGGNCDMDTSFMYQ<TFFLEDD

Parental  DKLEQIRKDYTSGAMLTGELKKTLIEVLQPLVAE-HQARRKEVTDEIVKEFMTPRKLSFDFQ
          .KLEQI.KD.TSGA.LTGEL.KTL.EVLQPL..E.HQA...EV.D.IVK.FMTP.KLSFDFQ
Retrocopy HKLEQIEKDHTSGAVLTGELRKTLTEVLQPLITEYHQAWGNEVADKIVKVFMTPQKLSFDFQ

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_1914 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,