RetrogeneDB ID: retro_ogar_2045

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873584.1:9254963..9255560(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C4orf33
• Ensembl ID: ENSOGAG00000010368
• Aliases: None
• Description: chromosome 4 open reading frame 33 [Source:HGNC Symbol;Acc:27025]

Sequence

>retro_ogar_2045
ATGAATTTTAAAATTGAACACACTTGGGATGGTTTTCCAGTGACGCATGAGCCAGTGTTTGTCAGGCTCAATCCAGGTGA
CAGGGGGATGATGATGGAAGTTAGTGCTCCATTTTTCAATAATCCTCCAGCCCCACTTGGAGAACCAGGAAAGCCTTTCA
ATGAACTATGGGATTATGAAGTTGTGGAAGCATTTTTCCTGAATGATAAAACTGAGCAGTATTTAGAAGTTGAACTTTGC
CCCCATGGACAACATTTAGTGCTTTGACTCTCTGGAAGAAGAAATGTATGGAAACAAGAACTTGCCTTATCATTTGAAGT
GGCCAGAGGAGAGACAAAATGGGAAGGTAAAGCTTATCTTCCTTGGAGTTATTTTCCACCAAATGTGACCAAATTCAATG
CATTTGCAATTCATGGATTAAAAGATAAGTGAAGTTATGAAGCTCTTTACCCTGTCCCTCAGCAGGAACTGCAAAAAGGA
CAAAAACCTGATTTCCATCGCCTAGAGTACTTCAAGCCTTTCAATTTTAACACACTGCTTGGAGAAGAATGGAAACAACC
AGAATCTGACCTATGGCTAACAGAGAAGGCGGATATA

Alignment

ORF - retro_ogar_2045 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.97 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MNFKIEHTWDGFPVKHEPVFVRLNPGDRGVMMEVSAPFFNDPPAPLGEPGKPFNELWDYEVVEAFFLNDI
          MNFKIEHTWDGFPV.HEPVFVRLNPGDRG.MMEVSAPFFN.PPAPLGEPGKPFNELWDYEVVEAFFLND.
Retrocopy MNFKIEHTWDGFPVTHEPVFVRLNPGDRGMMMEVSAPFFNNPPAPLGEPGKPFNELWDYEVVEAFFLNDK

Parental  TEQYLEVELCPHGQHLVLLLSGRRNVWKQELALSFEVARGETKWEGKAYLPWSYFPPNVTKFNAFAIHGS
          TEQYLEVELCPHGQHLVL.LSGRRNVWKQELALSFEVARGETKWEGKAYLPWSYFPPNVTKFNAFAIHG.
Retrocopy TEQYLEVELCPHGQHLVL*LSGRRNVWKQELALSFEVARGETKWEGKAYLPWSYFPPNVTKFNAFAIHGL

Parental  EDKQSYEALYPVPQQELQEGQKPDFHRLEYFKPFNFNTLLGEEWKQPESDLWLTEKPDI
          .DK.SYEALYPVPQQELQ.GQKPDFHRLEYFKPFNFNTLLGEEWKQPESDLWLTEK.DI
Retrocopy KDK*SYEALYPVPQQELQKGQKPDFHRLEYFKPFNFNTLLGEEWKQPESDLWLTEKADI

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_2045 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Mus musculus	ENSMUSG00000025766	1 retrocopy	retro_mmus_1879,
Otolemur garnettii	ENSOGAG00000010368	1 retrocopy	retro_ogar_2045 ,
Rattus norvegicus	ENSRNOG00000038330	1 retrocopy	retro_rnor_533,
Tupaia belangeri	ENSTBEG00000014766	1 retrocopy	retro_tbel_4617,