RetrogeneDB ID: retro_ogar_299

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: AAQR03192484.1:3713..5138(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CAP1
• Ensembl ID: ENSOGAG00000005492
• Aliases: None
• Description: CAP, adenylate cyclase-associated protein 1 (yeast) [Source:HGNC Symbol;Acc:20040]

Sequence

>retro_ogar_299
ATGGCTGACATGCAAAATCTGGTAGAAAGATTGGAGAGGGCAGTGGGCCACCTGGAGGCAGTATCACATACCTCTGACAT
GCACTGTGGGTATGGAGACAATTCATCAAAAGGGGCAGTTCCATAAGTGCAAGCATTTGACTCACTGCTTGCCGGTCCTG
TGAGAGAGTACTTGAAGATCAGTAAAGAAATTGGAGGAGACGTGCAGAAACATGAGGAGATGGTCCACACAGGTCTGAAG
TTGGAGCGAGTACTCCTGGTTACAGCCTCTCAGTGTCAGCAGCCAGCAGGCAATAAGCTTTGTGATTTGCTGGCACCCAT
CTCAGAGCAGATCCAAGAAGTGATAGCTTTTCCAGAGAAGAACCGAGGCAGCAAGTTGTTCAATCACTTGTCAGCTGTCA
GTGAAAGCATCCAAGCCCTGGGCTGGGTGGCTATGACTCCTATGCCTGGCCCCTATGTGATAGAAATGAATGATGCTGCT
ATGTTTTATACAAACCGAGTCCTCAAGGAGTACAAAGATGTGAATAAGAAGCATGTAGAGTGGGTCAAAGCTTACTTGAG
TATATGGACAGAGCAGCAGGGTTACATTAAGGAGTTCCATACCACCAGACTGTCCTGGAGCAAGACGGGGCCTGTGGCAA
AAGAACTGAGTGGATTACCATCTGGACCTTCTGCTGGATCAGGCCCACCTCCCCCACCAACAGGCCCACCTCCTCCCCCA
GTCTCCACCAGTTCAGGCTCTGATGAGTCTACATCCCGTTCAGCACTGTTTGTGCAGATTAATCAGGGGGAGAGCATCAC
ACATGCCCTAAAACATGTATCTGATGACATGAAGACTCACAAGAACCCCCTGCCTTGAAGGTTCAGAGTGGTCCAGTACG
CAGTGGCCCCAGGCCGTTTTCTGCACCCAACCCCCAAACCAGCCCATCCCCCAAACCAACCTCAAAGAAGGAGCTAGCTC
TACTTAAACTGGAGGGCAAAAAGTGGAGAGTGGAAAATCAGGAGAATGTTTCCAACCAGGTGATTGATGACACGGAGCTG
AAACAGGTGGTTTACATGTACAAATGTGTCAACACCATATTGCAAATCAAGGGCAAAATTAACTCCATTACAGTAGATAA
CTGTAAGAAACTTGGTCTGGTATTTGATGACTGTGGTGGGCATCGTGGAGATAATCAATAGTAGGGATGTCAAAGTTCAG
GTAATGGGTAAAGTGCCAACCATTTCCATCAACAAAACAAATGGCTGCCATGCTTACTTGAGCAAGAATTCCCTGGATTG
TGAGATAGTCAGTGCCAAATCTTCTGAGATGAACGTCCTCATTCCTACAGAAAGCGGTGACTTTAATGAGTTTCCAGTCC
CTGAGCAGTTCAAGACCTTATGGAATGAGCAGAAGTTGGTCACCACAGTGACAGAAATTGCTGGT

Alignment

ORF - retro_ogar_299 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.52 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MADMQNLVERLERAVGRLEAVSHTSDMHCGYGDSSSKGAVPYVQAFDSLLAGPVGEYLKISKEIGGDVQK
          MADMQNLVERLERAVG.LEAVSHTSDMHCGYGD.SSKGAVP.VQAFDSLLAGPV.EYLKISKEIGGDVQK
Retrocopy MADMQNLVERLERAVGHLEAVSHTSDMHCGYGDNSSKGAVP*VQAFDSLLAGPVREYLKISKEIGGDVQK

Parental  HAEMVHTGLKLERALLVTASQCQQPAGNKLSDLLAPISEQIQEVITFREKNRGSKLFNHLSAVSESIQAL
          H.EMVHTGLKLER.LLVTASQCQQPAGNKL.DLLAPISEQIQEVI.F.EKNRGSKLFNHLSAVSESIQAL
Retrocopy HEEMVHTGLKLERVLLVTASQCQQPAGNKLCDLLAPISEQIQEVIAFPEKNRGSKLFNHLSAVSESIQAL

Parental  GWVAMAPKPGPYVKEMNDAAMFYTNRVLKEYKDVNKKHVDWVKAYLSIWTELQGYIKEFHTTGLSWSKTG
          GWVAM.P.PGPYV.EMNDAAMFYTNRVLKEYKDVNKKHV.WVKAYLSIWTE.QGYIKEFHTT.LSWSKTG
Retrocopy GWVAMTPMPGPYVIEMNDAAMFYTNRVLKEYKDVNKKHVEWVKAYLSIWTEQQGYIKEFHTTRLSWSKTG

Parental  PVAKELSGLPSGPSAGSGPPPPPPGPPPPPVPTSSGSDESTSRSALFAQINQGESITHALKHVSDDMKTH
          PVAKELSGLPSGPSAGSGPPPPP.GPPPPPV.TSSGSDESTSRSALF.QINQGESITHALKHVSDDMKTH
Retrocopy PVAKELSGLPSGPSAGSGPPPPPTGPPPPPVSTSSGSDESTSRSALFVQINQGESITHALKHVSDDMKTH

Parental  KN-PALKAQSGPVRSGPKPFSAPKPQTSP-SPKPTTKKEPALLELEGKKWRVENQENVSNLVIDDTELKQ
          KN.P.L..........P.......P...P.SPKPT.KKE.ALL.LEGKKWRVENQENVSN.VIDDTELKQ
Retrocopy KN>PCLEGSEWSSTQWPQAVFCTQPPNQP>SPKPTSKKELALLKLEGKKWRVENQENVSNQVIDDTELKQ

Parental  VVYIYKCVNTTLQIKGKINSITVDNCKKLGLVFDD-VVGIVEIINSRDVKVQVMGKVPTISINKTDGCHA
          VVY.YKCVNT.LQIKGKINSITVDNCKKLGLVFDD.VVGIVEIINSRDVKVQVMGKVPTISINKT.GCHA
Retrocopy VVYMYKCVNTILQIKGKINSITVDNCKKLGLVFDD>VVGIVEIINSRDVKVQVMGKVPTISINKTNGCHA

Parental  YLSKNSLDCEIVSAKSSEMNVLIPTESGDFNEFPVPEQFKTLWNGQKLVTTVTEIAG
          YLSKNSLDCEIVSAKSSEMNVLIPTESGDFNEFPVPEQFKTLWN.QKLVTTVTEIAG
Retrocopy YLSKNSLDCEIVSAKSSEMNVLIPTESGDFNEFPVPEQFKTLWNEQKLVTTVTEIAG

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_299 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 10 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003012	2 retrocopies	retro_cfam_1316, retro_cfam_645,
Homo sapiens	ENSG00000131236	2 retrocopies	retro_hsap_2666, retro_hsap_664,
Gorilla gorilla	ENSGGOG00000027527	2 retrocopies	retro_ggor_1860, retro_ggor_575,
Macropus eugenii	ENSMEUG00000004960	1 retrocopy	retro_meug_544,
Mus musculus	ENSMUSG00000028656	1 retrocopy	retro_mmus_1265,
Nomascus leucogenys	ENSNLEG00000012077	2 retrocopies	retro_nleu_1600, retro_nleu_2221,
Otolemur garnettii	ENSOGAG00000005492	1 retrocopy	retro_ogar_299 ,
Pongo abelii	ENSPPYG00000001496	4 retrocopies	retro_pabe_2212, retro_pabe_2358, retro_pabe_2415, retro_pabe_584,
Pan troglodytes	ENSPTRG00000000583	2 retrocopies	retro_ptro_1796, retro_ptro_484,
Rattus norvegicus	ENSRNOG00000013492	1 retrocopy	retro_rnor_1180,