RetrogeneDB ID: retro_ogar_1525

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873550.1:1592702..1593850(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000031011
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: NONO
• Ensembl ID: ENSOGAG00000004834
• Aliases: None
• Description: non-POU domain containing, octamer-binding [Source:HGNC Symbol;Acc:7871]

Sequence

>retro_ogar_1525
AGGAAATTATTTGAGAAATATGGGAAGGCAAGCGAAGTCTTCATCCATAAGGATAAAGGATTTGGCTTTATCCGCTTGGA
AACGCGAACCTTAGCGGAGATTCAGGAGATTGCCAAAGTGGAGCCGGACAATATGCCTCTCCCTGGAAAGCAGCTGCGTG
TGCGCTTTGCCTGCGACAGTGCATCCCTTACAGTCCGAAACCGTCCTCAGTATGTGTCCAGTGAACTTCTGGAAGAAGCC
TTTTCTGTGTTTGGCCAGGTGGAGAGGGCTGTAGTCATTGTGGATGATCGAGGAAGGCCCTCAGGAAAAGGCATTGTTGA
ATCCTCAGGGAAGCCAGTGGCTCGAAAAGCTCTGGACAGATGCAGTGAAGGCTCCTTCCTGTTAACCACATTTCCTCGTC
CTGTGACTGTGGAGCCCATGGACCAGTTAGATGATGAAGAAGGACTTCCAGAAAAGCTGCTTATAAAGAACCAGCAATTT
CTCAAGGAGCGAGAGCAGCCACCCAGATTTGCACAGCCGGTTCCTTTGAGTATGAGTATGCCGTGCGCTGGAAGGCACTC
ACTGAAATGGAGAAGGAGCAGCAGGACCAAGTGGACCGTAACATCAAGGAGGCTCGTGAGAAGCAGCAGGTGGAGATGGA
GGCTGCTCGTCATGAGCACCAGGTCATGCTAATGAGACAGGATTTGATGAGGTGCCAAGAACTTCGGAGGATGGAAGAAC
TGCATAACCAAGAGGTGCAAAAACGAAAGCAGCTGGAGCTCAGGCAGGAGGAGGAGGGCAGGCGCCGTGAGGGAGAGATG
CGGCGGCAACAGGAAGAAATGATGCGGCGACAGCGGGAAGGACTCAAGGGAACCTTCCCTGATGGGAGAGAGCAGGAGAT
ACGGATGGGCCAGATGGCTATGGGAGGTGCTATGGGCATAAACAACAGAGGCGCCAAGCCCCCTGCTCCTGTGCCAGCTG
GTACCTCAGCTCCTCCAGGACCTGCCACTATGATGCCCGACGGATCCTTGGGATTGACCCCACCAACAACTGAACGTTTT
GGGCAAGCTGCTACAGGGGAAGGAATTGGGGCAATTGGTGGAACTCCTCCTGCGTTCAACCGTGCAGCTCCTGGAGCTGA
ATTTGCTCCAAACAAACATCACTGATAC

Alignment

ORF - retro_ogar_1525 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.93 %
• Parental protein coverage: 81.1 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RKLFEKYGKAGEVFIHKDKGFGFIRLETRTLA---EIAKVELDNMPLRGKQLRVRFACHSASLTVRNLPQ
          RKLFEKYGKA.EVFIHKDKGFGFIRLETRTLA...EIAKVE.DNMPL.GKQLRVRFAC.SASLTVRN.PQ
Retrocopy RKLFEKYGKASEVFIHKDKGFGFIRLETRTLAEIQEIAKVEPDNMPLPGKQLRVRFACDSASLTVRNRPQ

Parental  YVSNELLEEAFSVFGQVERAVVIVDDRGRPSGKGIVEFSGKPAARKALDRCSEGSFLLTTFPRPVTVEPM
          YVS.ELLEEAFSVFGQVERAVVIVDDRGRPSGKGIVE.SGKP.ARKALDRCSEGSFLLTTFPRPVTVEPM
Retrocopy YVSSELLEEAFSVFGQVERAVVIVDDRGRPSGKGIVESSGKPVARKALDRCSEGSFLLTTFPRPVTVEPM

Parental  DQLDDEEGLPEKLVIKNQQFHKEREQPPRFAQP-GSFEYEYAMRWKALIEMEKQQQDQVDRNIKEAREKL
          DQLDDEEGLPEKL.IKNQQF.KEREQPPRFAQP.GSFEYEYA.RWKAL.EMEK.QQDQVDRNIKEAREK.
Retrocopy DQLDDEEGLPEKLLIKNQQFLKEREQPPRFAQP<GSFEYEYAVRWKALTEMEKEQQDQVDRNIKEAREKQ

Parental  EMEMEAARHEHQVMLMRQDLMRRQEELRRMEELHNQEVQKRKQLELRQEEERRRREEEMRRQQEEMMRRQ
          ..EMEAARHEHQVMLMRQDLMR.Q.ELRRMEELHNQEVQKRKQLELRQEEE.RRRE.EMRRQQEEMMRRQ
Retrocopy QVEMEAARHEHQVMLMRQDLMRCQ-ELRRMEELHNQEVQKRKQLELRQEEEGRRREGEMRRQQEEMMRRQ

Parental  QEGFKGTFPDAREQEIRMGQMAMGXGAMGINNRGAMPPAPVPAGTPAPPGPATMMPDGTLGLTPPTTERF
          .EG.KGTFPD.REQEIRMGQMAMG.GAMGINNRGA.PPAPVPAGT.APPGPATMMPDG.LGLTPPTTERF
Retrocopy REGLKGTFPDGREQEIRMGQMAMG-GAMGINNRGAKPPAPVPAGTSAPPGPATMMPDGSLGLTPPTTERF

Parental  GQAATMEGIGAIGGTPPAFNRAAPGAEFAPNKRRRY
          GQAAT.EGIGAIGGTPPAFNRAAPGAEFAPNK...Y
Retrocopy GQAATGEGIGAIGGTPPAFNRAAPGAEFAPNKHH*Y

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_1525 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 21 parental genes, and 31 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000016057	2 retrocopies	retro_amel_1438, retro_amel_795,
Bos taurus	ENSBTAG00000012152	2 retrocopies	retro_btau_1027, retro_btau_313,
Canis familiaris	ENSCAFG00000017071	1 retrocopy	retro_cfam_98,
Callithrix jacchus	ENSCJAG00000036744	1 retrocopy	retro_cjac_3990,
Equus caballus	ENSECAG00000008502	2 retrocopies	retro_ecab_357, retro_ecab_427,
Felis catus	ENSFCAG00000014807	2 retrocopies	retro_fcat_1219, retro_fcat_147,
Homo sapiens	ENSG00000147140	1 retrocopy	retro_hsap_1699,
Gorilla gorilla	ENSGGOG00000006194	1 retrocopy	retro_ggor_1273,
Microcebus murinus	ENSMICG00000000232	1 retrocopy	retro_mmur_569,
Myotis lucifugus	ENSMLUG00000002489	1 retrocopy	retro_mluc_622,
Mustela putorius furo	ENSMPUG00000004937	1 retrocopy	retro_mputfur_937,
Mus musculus	ENSMUSG00000031311	2 retrocopies	retro_mmus_3652, retro_mmus_632,
Nomascus leucogenys	ENSNLEG00000001278	1 retrocopy	retro_nleu_1344,
Oryctolagus cuniculus	ENSOCUG00000021848	2 retrocopies	retro_ocun_1317, retro_ocun_1804,
Otolemur garnettii	ENSOGAG00000004834	3 retrocopies	retro_ogar_1525 , retro_ogar_546, retro_ogar_593,
Pongo abelii	ENSPPYG00000020451	1 retrocopy	retro_pabe_1398,
Pan troglodytes	ENSPTRG00000022010	1 retrocopy	retro_ptro_1150,
Pteropus vampyrus	ENSPVAG00000016503	1 retrocopy	retro_pvam_444,
Rattus norvegicus	ENSRNOG00000003689	2 retrocopies	retro_rnor_1178, retro_rnor_1503,
Sorex araneus	ENSSARG00000007959	2 retrocopies	retro_sara_661, retro_sara_663,
Drosophila melanogaster	FBgn0004227	1 retrocopy	retro_dmel_11,