RetrogeneDB ID: retro_ogar_1312

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873542.1:7757372..7757772(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000025488
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: FABP3
• Ensembl ID: ENSOGAG00000013757
• Aliases: None
• Description: fatty acid binding protein 3, muscle and heart (mammary-derived growth inhibitor) [Source:HGNC Symbol;Acc:3557]

Sequence

>retro_ogar_1312
ATGGTGGACGCCTTCCTGGCTACCTGGAAACTAGTGGATAACAAGAATTTCAATGACTACATGAAGTCAATTGGGGTAGG
TTTTTCTACCAGGCAGGTGGCCAACATGACCAAGCCTACCACAGTCATCAAAAAGAACAGGGACACTATCATCCTAAAGA
CACAGAGCACCTTCAAGAACACAGAGACCAGCTTTAAGGTTGGGGTGGTGGTCGATGAGACAGCAGCAGATGACAGGAAG
GTCAAGTCCACTGTGACACTGGATGGAGACAAACTTATTCACCTGCAGAAGTGGGATGGGCAAGAGACAGCACTTGTGCG
AGAGCTAAGTGATGGAAAGTTTATCCTGACGCTCACCCACAGTACTGTAGTTTGTACTCCCACTTAACGAGAAAGAGGCA

Alignment

ORF - retro_ogar_1312 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.34 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MVDAFVGTWKLVDSKNFDDYMKSIGVGFATRQVANMTKPTTIIEKNGDTITLRTQSTFKNTEISFKLGVE
          MVDAF..TWKLVD.KNF.DYMKSIGVGF.TRQVANMTKPTT.I.KN.DTI.L.TQSTFKNTE.SFK.GV.
Retrocopy MVDAFLATWKLVDNKNFNDYMKSIGVGFSTRQVANMTKPTTVIKKNRDTIILKTQSTFKNTETSFKVGVV

Parental  FDETTADDRKVKSIVTLDGGKLVHLQKWDGQETTLVRELSDGKLILTLTHGSVVCTRT-YEKEA
          .DET.ADDRKVKS.VTLDG.KL.HLQKWDGQET.LVRELSDGK.ILTLTH..VVCT.T..EKEA
Retrocopy VDETAADDRKVKSTVTLDGDKLIHLQKWDGQETALVRELSDGKFILTLTHSTVVCTPT>NEKEA

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_1312 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 19 parental genes, and 46 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000016819	2 retrocopies	retro_btau_1467, retro_btau_295,
Danio rerio	ENSDARG00000023290	1 retrocopy	retro_drer_33,
Dasypus novemcinctus	ENSDNOG00000000511	2 retrocopies	retro_dnov_1510, retro_dnov_2482,
Equus caballus	ENSECAG00000024852	1 retrocopy	retro_ecab_519,
Homo sapiens	ENSG00000121769	1 retrocopy	retro_hsap_1258,
Gorilla gorilla	ENSGGOG00000014432	1 retrocopy	retro_ggor_990,
Macropus eugenii	ENSMEUG00000012501	6 retrocopies	retro_meug_1037, retro_meug_148, retro_meug_1660, retro_meug_273, retro_meug_563, retro_meug_819,
Microcebus murinus	ENSMICG00000009359	4 retrocopies	retro_mmur_1490, retro_mmur_203, retro_mmur_621, retro_mmur_734,
Myotis lucifugus	ENSMLUG00000013609	2 retrocopies	retro_mluc_1144, retro_mluc_1717,
Mus musculus	ENSMUSG00000028773	3 retrocopies	retro_mmus_2804, retro_mmus_3204, retro_mmus_65,
Nomascus leucogenys	ENSNLEG00000001586	1 retrocopy	retro_nleu_2097,
Otolemur garnettii	ENSOGAG00000002413	10 retrocopies	retro_ogar_1024, retro_ogar_1151, retro_ogar_1286, retro_ogar_1676, retro_ogar_2873, retro_ogar_3066, retro_ogar_3099, retro_ogar_3265, retro_ogar_715, retro_ogar_878,
Otolemur garnettii	ENSOGAG00000012166	1 retrocopy	retro_ogar_843,
Otolemur garnettii	ENSOGAG00000013757	4 retrocopies	retro_ogar_1148, retro_ogar_1312 , retro_ogar_1873, retro_ogar_959,
Otolemur garnettii	ENSOGAG00000031110	1 retrocopy	retro_ogar_2821,
Pongo abelii	ENSPPYG00000001616	1 retrocopy	retro_pabe_1048,
Pan troglodytes	ENSPTRG00000000457	1 retrocopy	retro_ptro_3047,
Rattus norvegicus	ENSRNOG00000012879	1 retrocopy	retro_rnor_2199,
Ictidomys tridecemlineatus	ENSSTOG00000003842	3 retrocopies	retro_itri_1544, retro_itri_640, retro_itri_641,