RetrogeneDB ID: retro_ogar_914

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873530.1:31746904..31747584(+)
• Located in intron of: ENSOGAG00000011648

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000024374
• Aliases: None
• Description: None

Sequence

>retro_ogar_914
TTTGACAAGCAGATGACCAAGTCAGAGCTGCTTAGGCAGCTCCAAGAACATGAGGAAGACTCAAGGGCACAGAAAGACGA
AGGGAGACCTACAATTAGTTTTAGTAACATAGTATCAGATATGAAAGTTGCCAGATCAGCTACAGCCAGAGTTAATACAA
GACCAGAGCATCAGATTCAACTTGATGAAGGACTTGACAGTTATGTTGACCAAGAGAAGACTCCTAATCTCAGAAAAAGG
AGAGATTTATTCAAGAGGAAGAGACTTAATATTTTTGACATTAAGGCATTTACTGAAGAACCACCTGAAACACAAACATC
ACCCTTACTTTGGGATGTGGAATTTGCTAAGCAGTTAAGACATTAACTGAACAGCCCTTTCAGAATGGGTTTGAAGAGAT
GATCCAGTGGACAAAAGAAGGGAAGCTGTGGGAATTCCCTATTAACAATGAAGCAGGTTTCAATGATGATGGTTCAGAAT
TTCATGAACATATATTTCTGAATAAATACCTGGAGGATTTCCCAAAACAAGGACCAGTTCGCCACTTCATGGAGCAGGTG
ACATGTGGCCTGTCCAAAAACCCATATCTAAGTGTTAAACAGAAAGTTGAGCACATAGAGTGGTTTAGAAATTATTTTAA
TAAGAAAAGGGACATTTTAAAATAAAGTAACATACAGTTC

Alignment

ORF - retro_ogar_914 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.23 %
• Parental protein coverage: 57.61 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FDKQMTKSDLLRQLQQHEEDSRAQKDEGRPKISFSNIVSDMKVARSATARVNTRPEHQIQFDEGLDSYVD
          FDKQMTKS.LLRQLQ.HEEDSRAQKDEGRP.ISFSNIVSDMKVARSATARVNTRPEHQIQ.DEGLDSYVD
Retrocopy FDKQMTKSELLRQLQEHEEDSRAQKDEGRPTISFSNIVSDMKVARSATARVNTRPEHQIQLDEGLDSYVD

Parental  QEKTAHLRKRRDLFKGKRLNIFDMKAFTEEAPETDTSPSLWDVEFAKQL-ATITEQPFQNGFEEMIQWTK
          QEKT..LRKRRDLFK.KRLNIFD.KAFTEE.PET.TSP.LWDVEFAKQL..T.TEQPFQNGFEEMIQWTK
Retrocopy QEKTPNLRKRRDLFKRKRLNIFDIKAFTEEPPETQTSPLLWDVEFAKQL<KTLTEQPFQNGFEEMIQWTK

Parental  EGKLWEFPINNEAGFNDDGSEFHEHIFLNKYLEDFPKQGPVRHFMELVTCGLSKNPYLSVKQKVEHIEWF
          EGKLWEFPINNEAGFNDDGSEFHEHIFLNKYLEDFPKQGPVRHFME.VTCGLSKNPYLSVKQKVEHIEWF
Retrocopy EGKLWEFPINNEAGFNDDGSEFHEHIFLNKYLEDFPKQGPVRHFMEQVTCGLSKNPYLSVKQKVEHIEWF

Parental  RNYFNEKRDILKIKNKEF
          RNYFN.KRDILK..N..F
Retrocopy RNYFNKKRDILK*SNIQF

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_914 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 11 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000008470	1 retrocopy	retro_chof_586,
Equus caballus	ENSECAG00000003600	1 retrocopy	retro_ecab_1028,
Nomascus leucogenys	ENSNLEG00000001164	1 retrocopy	retro_nleu_1999,
Oryctolagus cuniculus	ENSOCUG00000021467	1 retrocopy	retro_ocun_1747,
Otolemur garnettii	ENSOGAG00000024374	1 retrocopy	retro_ogar_914 ,
Ochotona princeps	ENSOPRG00000014606	1 retrocopy	retro_opri_1137,
Pongo abelii	ENSPPYG00000005306	1 retrocopy	retro_pabe_3785,
Sorex araneus	ENSSARG00000004428	1 retrocopy	retro_sara_594,
Sarcophilus harrisii	ENSSHAG00000007140	1 retrocopy	retro_shar_591,
Tarsius syrichta	ENSTSYG00000002170	1 retrocopy	retro_tsyr_238,
Tursiops truncatus	ENSTTRG00000012556	1 retrocopy	retro_ttru_1285,