RetrogeneDB ID: retro_ogar_3194

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873739.1:143082..143658(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000034908
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RAB40B
• Ensembl ID: ENSOGAG00000008284
• Aliases: None
• Description: RAB40B, member RAS oncogene family [Source:HGNC Symbol;Acc:18284]

Sequence

>retro_ogar_3194
GCTCAGGGTGTAATCCTTGTCTACGACATTGCGAACTGCTGGTCTTTTGACGGCATCAATCGATGGATTAAGGAGATTGA
CGAGCATGCCCCCGGGGTCCCTAAGATCTTGGTGGGAAACCGGCTCCATCTGGCCTTCAAGCGACAGGTGCCCACGGAGC
AGGCCCAGGCCTATGCAGAGCGCCAGGGTGTGACTTTCTTTGAGGTCAGCCCTCTCTGCAACTTCAACGTCACAGAGTCC
TTCACAGAGCTGGCCAGGACTGTGCTGCTGCGGCATGGGATGGACCGGCTCTGGAGGCCGAGCAAAGTGCTGAGCCTGCA
AGACCTGTGCTGCCGTGTGGTAGTGTCCTACACACCTGTGCACCTGGTGGACAAGCTCCCACTGCCGATGGCCTTGCGAA
GCCACCTCAAGTCTTTCTCCATGGCCAGTGGCCTGAATGCCAGGATGATGCACGGCCGCTCCTACTCTCTGGCTGCCAGT
ACCATTCACAAGAGGAGCAGTTTCCGCAAGGTGAAGGTTGTCCGCCCACCCCAAAGCCCTCCCAAAAACTGCACCAGAAA
TGGCTGCAAAATTTCT

Alignment

ORF - retro_ogar_3194 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.92 %
• Parental protein coverage: 68.82 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AQGVILVYDIANRWSFDGINRWIKEIDEHAPGVPKILVGNRLHLAFKRQVPTEQAQAYAERLGVTFFEVS
          AQGVILVYDIAN.WSFDGINRWIKEIDEHAPGVPKILVGNRLHLAFKRQVPTEQAQAYAER.GVTFFEVS
Retrocopy AQGVILVYDIANCWSFDGINRWIKEIDEHAPGVPKILVGNRLHLAFKRQVPTEQAQAYAERQGVTFFEVS

Parental  PLCNFNVTESFTELARTVLLRHGMDRLWRPSKVLSLQDLCCRVVVSCTPVHLVDKLPLPMALRSHLKSFS
          PLCNFNVTESFTELARTVLLRHGMDRLWRPSKVLSLQDLCCRVVVS.TPVHLVDKLPLPMALRSHLKSFS
Retrocopy PLCNFNVTESFTELARTVLLRHGMDRLWRPSKVLSLQDLCCRVVVSYTPVHLVDKLPLPMALRSHLKSFS

Parental  MASGLNARMMHGRSYSLAASTIHKRSSFRKVKVVCPPQSPPKNCTRNGCKIS
          MASGLNARMMHGRSYSLAASTIHKRSSFRKVKVV.PPQSPPKNCTRNGCKIS
Retrocopy MASGLNARMMHGRSYSLAASTIHKRSSFRKVKVVRPPQSPPKNCTRNGCKIS

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_3194 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000008284	1 retrocopy	retro_ogar_3194 ,