RetrogeneDB ID: retro_ogar_2002

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873579.1:10469678..10470140(-)
• Located in intron of: ENSOGAG00000005396

Retrocopy information

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

Parental gene information

• Parental gene symbol: B5SNI9_OTOGA
• Ensembl ID: ENSOGAG00000009049
• Aliases: None
• Description: Dolichyl pyrophosphate phosphatase 1 (Predicted) [Source:UniProtKB/TrEMBL;Acc:B5SNI9]

Sequence

>retro_ogar_2002
ATGGCAGCGGACGGACAGTGCTCGCTCCCCGCTTCATGGCGGCCGGTGACCCTCACCCACGTCGAGTATCCTGCAGGTGA
TCTCTCTGGCCACCTCCTTGCCTACCTGAGCCTTAGCCCTATATTTGTCATTGTTGGTTTTGTGACCCTCATCATATTTA
AGCGGGAGCTACACACGATCTCATTCCTGGGGGGCCTGGCATTGAACGAGGGAGTCAACTGGCTGATCAAAAACATCGTC
CAGTAACCGCGGCCCTGTGGGGGTCCCCACACAGCAGTGGGCACCAAGTACGGGATGCCCTCCAGCCATTCCCAGTTTAT
GTGGTTCTTCTCCATCTATTCCTTCCTTTTCCTCTATTTAAGAATGCACCAAACCAACAACGCCAGGTTCCTGGACTTGC
TGTGGAGGCACCTGCTCTCCTTGGGGCTCCTCACTGTGGCCTTTCTAGTCTCCTACAGCAGG

Alignment

ORF - retro_ogar_2002 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.7 %
• Parental protein coverage: 64.71 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAADGQCSLPASWRPVTLTHVEYPAGDLSGHLLAYLSLSPIFVIVGFVTLIIFKRELHTISFLGGLALNE
          MAADGQCSLPASWRPVTLTHVEYPAGDLSGHLLAYLSLSPIFVIVGFVTLIIFKRELHTISFLGGLALNE
Retrocopy MAADGQCSLPASWRPVTLTHVEYPAGDLSGHLLAYLSLSPIFVIVGFVTLIIFKRELHTISFLGGLALNE

Parental  GVNWLIKNIIQEPRPCGGPHTAVGTKYGMPSSHSQFMWFFSIYSFLFLYLRMHQTNNARFLDLLWRHLLS
          GVNWLIKNI.Q.PRPCGGPHTAVGTKYGMPSSHSQFMWFFSIYSFLFLYLRMHQTNNARFLDLLWRHLLS
Retrocopy GVNWLIKNIVQ*PRPCGGPHTAVGTKYGMPSSHSQFMWFFSIYSFLFLYLRMHQTNNARFLDLLWRHLLS

Parental  LGLLTVAFLVSYSR
          LGLLTVAFLVSYSR
Retrocopy LGLLTVAFLVSYSR

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_2002 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	ENSOGAG00000009049	1 retrocopy	retro_ogar_2002 ,