RetrogeneDB ID: retro_ogar_263

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873657.1:4997242..4997788(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000031978
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000002503
• Aliases: None
• Description: None

Sequence

>retro_ogar_263
ATGGGGAACATTTTTGAAAAGCTTTATAAAAGTCTGCTTGGAAAAAAAGAGATGCGTATTCTTATGTTGGGTTTGGATGG
AGTTGGAAAAACCATTATCTTGTGTAAACTGAAGCTGGGAAAGATTATAGATAACATTCCCACAATAGGTTTCAATGTGG
AGACAGTAGAGTATAAAGGTATCAGCCTCACAGTCGGGGATGGTGCTAGCCATTGCAGAGTAAGACCTTTGTGGCGACAT
TATTTTCGGGACACAAATGGTGTGATTTTTGTGGTTGACAGTAGTGACAGAGAGCGGGTTGGTGAGGCCCAGGAAGAACT
ACTCAGATTGTTAGTGGAAGATGAGCTCAGAGATGCAGTTTGGTTGGTGCTTGCAAATAAACAGGATCTTCCCAACGCTA
TGAAGGTAGCAGAGATAACAGACAAGTTGGGCCTACATTCCTTCCACTACAGAACCTGGCACATTCAGGCTACATGTGCC
ATCAGTGGAGACGGGCTTTCCGAAGGCCTGGACTGGTTCTCCAACCAGCTTGCAAACCAGAAGTGA

Alignment

ORF - retro_ogar_263 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.37 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGNIFEKLYKSLLGKKEMCILMLGLDGVGKTTILYKLKLGKTVDAIPTIGFNVETVEYKGISLTVRDGAS
          MGNIFEKLYKSLLGKKEM.ILMLGLDGVGKT.IL.KLKLGK..D.IPTIGFNVETVEYKGISLTV.DGAS
Retrocopy MGNIFEKLYKSLLGKKEMRILMLGLDGVGKTIILCKLKLGKIIDNIPTIGFNVETVEYKGISLTVGDGAS

Parental  HYRVRPLWRHYFRNTNGVIFVVDSSDRERVGEAQEELLRLLVEDELRDAVWLVLANKQDLPNAMKVAEIT
          H.RVRPLWRHYFR.TNGVIFVVDSSDRERVGEAQEELLRLLVEDELRDAVWLVLANKQDLPNAMKVAEIT
Retrocopy HCRVRPLWRHYFRDTNGVIFVVDSSDRERVGEAQEELLRLLVEDELRDAVWLVLANKQDLPNAMKVAEIT

Parental  DKMGLHSFHYRNWHIQATCAISGDGLYEGLDWFSNQLANQK
          DK.GLHSFHYR.WHIQATCAISGDGL.EGLDWFSNQLANQK
Retrocopy DKLGLHSFHYRTWHIQATCAISGDGLSEGLDWFSNQLANQK

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_263 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 13 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000004184	1 retrocopy	retro_amel_1639,
Bos taurus	ENSBTAG00000006785	1 retrocopy	retro_btau_26,
Ciona savignyi	ENSCSAVG00000007011	1 retrocopy	retro_csav_2,
Equus caballus	ENSECAG00000009563	1 retrocopy	retro_ecab_106,
Latimeria chalumnae	ENSLACG00000019009	1 retrocopy	retro_lcha_10,
Mus musculus	ENSMUSG00000062421	1 retrocopy	retro_mmus_2056,
Oryctolagus cuniculus	ENSOCUG00000023198	1 retrocopy	retro_ocun_132,
Otolemur garnettii	ENSOGAG00000002503	1 retrocopy	retro_ogar_263 ,
Otolemur garnettii	ENSOGAG00000010974	4 retrocopies	retro_ogar_2431, retro_ogar_295, retro_ogar_3353, retro_ogar_974,
Otolemur garnettii	ENSOGAG00000012034	4 retrocopies	retro_ogar_1407, retro_ogar_1501, retro_ogar_2963, retro_ogar_764,
Otolemur garnettii	ENSOGAG00000013336	1 retrocopy	retro_ogar_378,
Ictidomys tridecemlineatus	ENSSTOG00000019768	1 retrocopy	retro_itri_883,
Tetraodon nigroviridis	ENSTNIG00000011685	1 retrocopy	retro_tnig_19,