RetrogeneDB ID: retro_ogar_859

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873529.1:8277238..8277899(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000003220
• Aliases: None
• Description: None

Sequence

>retro_ogar_859
CCAGCCTCAACCCCGGCCCCAGGGACAGCGCCACTTCCAGCTCCCACTGCGGCTCCAGCCTCATCTCCAGACCTGCCGAG
GCAGCAGCTGCAACCACAGGCCCGAGCAGACTCGGCATCAGCGCAGCCCCGGTGCAGACCCAGGGCTCTCGCTGACTGCT
GCCCCTCCCTGCGCCCTTCCTTGGTACAGCGCCGCCAAACTGCACCCAGTCATTTAGCTTCCACAGCTGTGAGGAAGGAA
AGAGAGAGCTGCCGGTGTGACTGGAACCCTGCTGGGAACTGTTGACAAGCAGTGAGTGGAGGTCACCAGTTGTTTTCCAG
TGTGGCACAAGGAGTCAGAAGATGAAGTAACTATTGACATGGAATTAGTGAAGGACATGTGTGAATTGCACAAAAAGCCT
CTCGGACTGAGCTCGTCCTGGGCTGGCACCCTGCAGGCCATGATACTCACTGAACACTGTGAGGATAGTGAGCACCGCAG
CCAGGAGGCCTCCAACCCCATTTACATCACTGTGGACACAAGTCATCAGAACCACCGCGCGAGCGTCAAAGCCCACATCA
GCACTTTACTGGGTGTCCCTGGGAGGACCCTGGGAAGGATGTTCGCAATTCTGACTATGAAATACGCATATTTTGACACT
GAAGGCATTGGAGTTGACATG

Alignment

ORF - retro_ogar_859 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.6 %
• Parental protein coverage: 60.86 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  PASTPAPAPTPAPAPAAAPASSSD-PAAAAATATAPGQTPASAQAPSQTPAPALTGPALPGPF-PGGRVV
          PASTPAP...P.PAP.AAPASS.D.PA.AAA..T.P.....SA.AP.QT.......P.LP.PF.P.....
Retrocopy PASTPAPGTAPLPAPTAAPASSPD<PAEAAAATTGPSRLGISA-APVQTQGSR*LLP-LPAPF<PWYSAA

Parental  KLHPVI-LASIVDSYERRNEGAARVIGTLLGTVDKHSVEVTNCFSVPHNESEDEVAVDMEFAKNMYELHK
          KLHPVI.L.......ER.........GT.....DK..VEVT.CF.V.H.ESEDEV..DME..K.M.ELHK
Retrocopy KLHPVI*LPQL*GRKERAAGVTGTLLGTV----DKQ*VEVTSCFPVWHKESEDEVTIDMELVKDMCELHK

Parental  -KVSPNELILGWYATGHD-ITEHSVLIHEYYSREAPNPIHLTVDTSLQNGRMSIKAYVSTLMGVPGRTMG
          .K.S..EL.LGW...GHD..TEH.....E..S.EA.NPI..TVDTS.QN.R.S.KA..STL.GVPGRT.G
Retrocopy <KASRTELVLGWHPAGHD>LTEHCE-DSEHRSQEASNPIYITVDTSHQNHRASVKAHISTLLGVPGRTLG

Parental  VMFTPLTVKYAYYDTERIGVDL
          .MF..LT.KYAY.DTE.IGVD.
Retrocopy RMFAILTMKYAYFDTEGIGVDM

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_859 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 16 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000004861	1 retrocopy	retro_btau_527,
Canis familiaris	ENSCAFG00000006884	1 retrocopy	retro_cfam_1339,
Callithrix jacchus	ENSCJAG00000011903	1 retrocopy	retro_cjac_1416,
Erinaceus europaeus	ENSEEUG00000001226	1 retrocopy	retro_eeur_130,
Echinops telfairi	ENSETEG00000002717	2 retrocopies	retro_etel_1583, retro_etel_35,
Homo sapiens	ENSG00000175390	3 retrocopies	retro_hsap_2106, retro_hsap_2512, retro_hsap_4321,
Gorilla gorilla	ENSGGOG00000011702	5 retrocopies	retro_ggor_1566, retro_ggor_1567, retro_ggor_1568, retro_ggor_1589, retro_ggor_1590,
Myotis lucifugus	ENSMLUG00000000825	1 retrocopy	retro_mluc_2356,
Macaca mulatta	ENSMMUG00000015010	1 retrocopy	retro_mmul_412,
Oryctolagus cuniculus	ENSOCUG00000004225	1 retrocopy	retro_ocun_1488,
Otolemur garnettii	ENSOGAG00000003220	3 retrocopies	retro_ogar_3041, retro_ogar_859 , retro_ogar_863,
Otolemur garnettii	ENSOGAG00000014868	1 retrocopy	retro_ogar_388,
Otolemur garnettii	ENSOGAG00000016843	1 retrocopy	retro_ogar_1236,
Pongo abelii	ENSPPYG00000003512	1 retrocopy	retro_pabe_175,
Pan troglodytes	ENSPTRG00000003326	1 retrocopy	retro_ptro_197,
Pteropus vampyrus	ENSPVAG00000015764	1 retrocopy	retro_pvam_371,