RetrogeneDB ID: retro_ogar_1480

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873549.1:1208408..1209770(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000010065
• Aliases: None
• Description: None

Sequence

>retro_ogar_1480
ATGATCACCAAGACCCAAAAAGTAGACCTGGGCTTTGGGCTGCCAGAGAAGAAAAAGAAGAGGAAGGTGATCAAAGAACC
AGAGACTCAATACTCAGTTTTGAACAGTGACAATTGTTTTGCCAATGTTTCTCCCATAAGAGCCACATCCCCTCTAAGAT
TGTGGTCCAAGGGGAGACACCTGAGATGCCTCTAGTGAAGAAAAAGAAAAAGAAGAAGGGTTATAGCACCCCTTGTGAGG
AGCAGCTAGAACCTGAGACCACCTGTCATGCTAAACAGACAGAGAAGTCACCCAGCCCCAGGAAGCAGGTGTTTAGTCTC
CCACGGAATTTCTCCATGGGGAGAAGAAAAAGAAGAGGAAGTCCTCCTTACCTCCAACCATGTCCCATGGGTTGGAGGCA
AAGACCTCTCCAGACCCCAGACAGAATGAGGAGGTGGTGACCAGAGTTGGCAAGAAGGTCAAAAAACACAAGAAGGATAA
AAAGGCCCAGGACCCCGCAGCCTTTTCAGTCTAGGACCCTTGGTTCTGCGATGCTGGGGCCGGGTACACCTGCTCAGTGG
GGAGGGAAGGTAAGGAGCAGGCAGCCGCAGGGCAGAAACGGAAGCAGGGGAGTGCCAGGGAACCGAGCAGGAAAGGGAAG
AAGAAAACAAAGATCCACCAGGAGGGAGACACCCTCCCAGGGCACTCCAGGCTCTCCGTCCACGCAGAGCAGTCCTGGGA
AGGAAGTCGAATGAGGCCAGTTAAAATTGATGCTCCAGAATACATCCCCCGAGGAGATGGCCCCGAGGCACCAGCAAAGG
AAAAATCCAAGAAGAAGGTAGAGCAGCCAGGCATGGAGGAGGTGGCTCTGAAAGGGAAGTAGAATAAGAGGAAGAAAGAC
AGCGGTGTAGTAGGAGACCCTTGGGAGGAGGATCCAGACACAGACCTGGAGGTGGTGTCGGAAAAGAAAGGGAACGCGGA
CGAGGCGCACACTGACCAGGGGAGGCAAAGGCCTTGCGAGAAGAGACTGACCGTGAGTCGCGCAAAACGGAAACTCCGAA
ACCAGCAAGTGACGGGAACCCAGTTTGGCCAGTGGGATACTGCTGGTTTTGAAAATGAGGAACAGAAACTGAAATTCCTC
AAACTTATGGGTGTCTTTAAAAATCTGTCCCCTTCATTCAGCCGGCCCCCTAGCATGGCTGGAAGGCCCAACGTGGCCCT
CAACAAGAAGGCAGCTGACACTCAGCAGCAGAACTTGCAACCGGACTACGACTGGGCCATGAGCTGAAGTACCAGCCGAG
GAGCTGGCCTTGGCTTCTCTAATGCTGCAGGCAAAATCTTTTATATTGACAGAAACGCTTCTAAATCATCAAGTTTGAAG
AT

Alignment

ORF - retro_ogar_1480 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.58 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  MITKTPKVDLGLGLPEKKKKKKKVIKEPETQYSVLNSNNCFANVSPIRATSP-PKIMVQGETPEMPLVKK
          MITKT.KVDLG.GLPEKKKK.K.VIKEPETQYSVLNS.NCFANVSPIRATSP..KI.VQGETPEMPLVKK
Retrocopy MITKTQKVDLGFGLPEKKKKRK-VIKEPETQYSVLNSDNCFANVSPIRATSP<SKIVVQGETPEMPLVKK

Parental  KKKKKGYSTPCEEQLEPETTCHARQTEKSPS-PRKQ-VLSHTEFLRGEKKKKRKSSLPPTMSHGLGAKTS
          KKKKKGYSTPCEEQLEPETTCHA.QTEKSPS.P....V.S.TEFL.GEKKKKRKSSLPPTMSHGL.AKTS
Retrocopy KKKKKGYSTPCEEQLEPETTCHAKQTEKSPS<PQEAGV*SPTEFLHGEKKKKRKSSLPPTMSHGLEAKTS

Parental  PDPRQNEEVATRVGKKVKKHKKDKKAQDPAAFSVQDPWFCNAGDGYTCSVGREGKEQAAPGQKRKQGSAR
          PDPRQNEEV.TRVGKKVKKHKKDKKAQDPAAFSV.DPWFC.AG.GYTCSVGREGKEQAA.GQKRKQGSAR
Retrocopy PDPRQNEEVVTRVGKKVKKHKKDKKAQDPAAFSV*DPWFCDAGAGYTCSVGREGKEQAAAGQKRKQGSAR

Parental  EPSGKGKKKKKIYQEGDTLLGHSKLSRSTESSPRKGSRMKPVKIDAPEYIPLGDGPKAPAKKKMKSKKKV
          EPS.KGKKK.KI.QEGDTL.GHS.LS...E.S...GSRM.PVKIDAPEYIP.GDGP.APAK...KSKKKV
Retrocopy EPSRKGKKKTKIHQEGDTLPGHSRLSVHAEQS-WEGSRMRPVKIDAPEYIPRGDGPEAPAKE--KSKKKV

Parental  EQPVMEEVALKRKKKKKRKKDSGVVGDPWKEDPDPDLEVVLEKKGNMDEAHIDQVRR-KALQEEIDRESG
          EQP.MEEVALK..K..KRKKDSGVVGDPW.EDPD.DLEVV.EKKGN.DEAH.DQ.R..KAL.EE.DRES.
Retrocopy EQPGMEEVALK-GK*NKRKKDSGVVGDPWEEDPDTDLEVVSEKKGNADEAHTDQGRQ<KALREETDRESR

Parental  KTET-SETRK-WTGTQFGQWDTAGFENEEQKVKFLKLMGGFKNLSPSFSRPPSMAGRPNMALNKKAADTL
          KTET.SET.K..TGTQFGQWDTAGFENEEQK.KFLKLMG.FKNLSPSFSRPPSMAGRPN.ALNKKAADT.
Retrocopy KTET<SETSK<VTGTQFGQWDTAGFENEEQKLKFLKLMGVFKNLSPSFSRPPSMAGRPNVALNKKAADTQ

Parental  QQNLQRDYDRAMSWKYSRGAGLGFSNAADKIFYIDRNASKS-IKFED
          QQNLQ.DYD.AMS...SRGAGLGFSNAA.KIFYIDRNASKS.IKFED
Retrocopy QQNLQPDYDWAMS*STSRGAGLGFSNAAGKIFYIDRNASKS<IKFED

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_1480 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 9 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000018032	2 retrocopies	retro_cfam_1557, retro_cfam_1763,
Callithrix jacchus	ENSCJAG00000009625	1 retrocopy	retro_cjac_3199,
Homo sapiens	ENSG00000103550	3 retrocopies	retro_hsap_3487, retro_hsap_4007, retro_hsap_979,
Gorilla gorilla	ENSGGOG00000005673	1 retrocopy	retro_ggor_2691,
Macaca mulatta	ENSMMUG00000002707	2 retrocopies	retro_mmul_1771, retro_mmul_798,
Nomascus leucogenys	ENSNLEG00000012496	2 retrocopies	retro_nleu_1618, retro_nleu_551,
Otolemur garnettii	ENSOGAG00000010065	4 retrocopies	retro_ogar_1115, retro_ogar_1480 , retro_ogar_1481, retro_ogar_2259,
Pongo abelii	ENSPPYG00000007151	3 retrocopies	retro_pabe_3293, retro_pabe_828, retro_pabe_920,
Pan troglodytes	ENSPTRG00000007836	3 retrocopies	retro_ptro_2360, retro_ptro_767, retro_ptro_924,