RetrogeneDB ID: retro_ogar_1218

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873539.1:26017907..26018552(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RPIA
• Ensembl ID: ENSOGAG00000034178
• Aliases: None
• Description: ribose 5-phosphate isomerase A [Source:HGNC Symbol;Acc:10297]

Sequence

>retro_ogar_1218
AACCAAGTGCTGGGAATTGGAAGTGGCTCTACAATTGTCCATGCTGTGCAGCGAATAGCCGAAAGAGTGAAGCAATAGAA
TGTGAACCTCATCTGCATTCCCACCTCCTTCCAGGCCCGTCAGCTCATCCTGGAGCATGGCCTGACACCCAGGGATCTGG
ATTGACACCCAGAGATTGACCTCGCCATTGATGGTGCTGATGAAGTAGATGCTGATCTCAATCTCATCAAGGGTGGTGGA
GGCTGCCTGACCCAGGAGAAGATCATGGCTGGCTATGCCAGTCGCTTCATCGTGATCGCTGATTTCAGGAAAGATTCTAA
GAACCTTGGGGATCAGTGGCACAAGAGAATCCCCATTCAGGTCATACCAATGGCCTACGTCCCAGTGAGCCGAGCTGTGA
GCCAGAAGTTTGGGGGTGCAGTGGTACTTCGAATGGCTGTTAACAATGCAGGTCCTGTGGTGACAGATAATGGGAATTTT
ATCTTGGATTGGAAGTTTGACCGGGTACACAAATGGAGTGAAGTGAACACAGCTATCAAAATGATTCCAGGTGTGGTGGA
CACAGGTCTGTTCATCAACATGGCTGAGAGGGTTTATTTCCAGATGCAGGATGGCTCAGTGAACATGAGGGAGAAGCCCT
TCTCT

Alignment

ORF - retro_ogar_1218 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.09 %
• Parental protein coverage: 69.33 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NQVLGIGSGSTIVHAVQRIAERVKQENLNLVCIPTSFQARQLILQHGLTLSDLDRHPEIDLAIDGADEVD
          NQVLGIGSGSTIVHAVQRIAERVKQ.N.NL.CIPTSFQARQLIL.HGLT..DLD.HPEIDLAIDGADEVD
Retrocopy NQVLGIGSGSTIVHAVQRIAERVKQ*NVNLICIPTSFQARQLILEHGLTPRDLD*HPEIDLAIDGADEVD

Parental  ADLNLIKGGGHRGCLTQEKIVAGYASRFIVIADFRKDSKNLGDQWHKGIPIEVIPMAYVPVSRAVSQKFG
          ADLNLIKGGG..GCLTQEKI.AGYASRFIVIADFRKDSKNLGDQWHK.IPI.VIPMAYVPVSRAVSQKFG
Retrocopy ADLNLIKGGG--GCLTQEKIMAGYASRFIVIADFRKDSKNLGDQWHKRIPIQVIPMAYVPVSRAVSQKFG

Parental  GAVELRMAVNKAGPVVTDNGNFILDWKFDRVHKWSEVNTAIKMIPGVVDTGLFINMAERVYFGMQDGSVN
          GAV.LRMAVN.AGPVVTDNGNFILDWKFDRVHKWSEVNTAIKMIPGVVDTGLFINMAERVYF.MQDGSVN
Retrocopy GAVVLRMAVNNAGPVVTDNGNFILDWKFDRVHKWSEVNTAIKMIPGVVDTGLFINMAERVYFQMQDGSVN

Parental  MREKPFS
          MREKPFS
Retrocopy MREKPFS

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_1218 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 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000002866	1 retrocopy	retro_btau_1373,
Equus caballus	ENSECAG00000011754	1 retrocopy	retro_ecab_645,
Macropus eugenii	ENSMEUG00000008256	1 retrocopy	retro_meug_1506,
Microcebus murinus	ENSMICG00000006462	1 retrocopy	retro_mmur_722,
Myotis lucifugus	ENSMLUG00000005384	1 retrocopy	retro_mluc_1129,
Monodelphis domestica	ENSMODG00000009649	1 retrocopy	retro_mdom_320,
Oryctolagus cuniculus	ENSOCUG00000006840	3 retrocopies	retro_ocun_1541, retro_ocun_1708, retro_ocun_1709,
Otolemur garnettii	ENSOGAG00000034178	2 retrocopies	retro_ogar_1218 , retro_ogar_518,
Tarsius syrichta	ENSTSYG00000006406	8 retrocopies	retro_tsyr_1081, retro_tsyr_1088, retro_tsyr_1902, retro_tsyr_2028, retro_tsyr_393, retro_tsyr_709, retro_tsyr_725, retro_tsyr_994,
Tursiops truncatus	ENSTTRG00000000876	2 retrocopies	retro_ttru_1175, retro_ttru_799,