RetrogeneDB ID: retro_ogar_1626

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873557.1:4490491..4491085(+)
• Located in intron of: ENSOGAG00000012160

Retrocopy information

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

Parental gene information

• Parental gene symbol: BRE
• Ensembl ID: ENSOGAG00000007335
• Aliases: None
• Description: brain and reproductive organ-expressed (TNFRSF1A modulator) [Source:HGNC Symbol;Acc:1106]

Sequence

>retro_ogar_1626
AACTAGACTGGTGAATTTTCAGCTCGTTTCCTTTTGAAGTTGCTAGTGGATTTCAGCAATATTCCCACATACCGGCTCAA
GGATGTAAATGAAGACCCTGGAGAAGATACGGCCCTCCTTTCTGTCAGTTTTGAGGACACTGAAGCTACCCAAGTGTACC
CCAAGCTGTACTTGTCACCCTGAATTGAGCATGCACTTGGCAGCTCCTCAGCTCTTCATATCCCAGCTTTTCCAGGAGGA
GGATATCTCATTGATTATGTTCCTCAAGTGTGCCACCTGCTCACCAACAAGGTGCAGTATGTGATTCAGGGATATCATAA
AAGAAAAGAGTATACTGCTGCTTTCCTCAGTCACTTTGGCACAGGTGTCATGGAATATGATGCAGAAGGCTTTACAAAAC
TCACTCTGCTGCTGATGTGGAAAGATTTTTGTTTTCTTGTACACATTGACCTGCCCCTGTTTTTTCCCCAGCCAACTCTC
ACATTTCAATCCGTCTATCACTTTACCAAAAGCAGACAACTTTACTCCCAGGCCCCCAAAAATTATCCGTACAGCCCCAG
ATGGGATGGAAATGAAATAACCAAAAGAGCAAAG

Alignment

ORF - retro_ogar_1626 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.5 %
• Parental protein coverage: 62.5 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NWTGEFSARFLLKLPVDFSNIPTYLLKDVNEDPGEDVALLSVSFEDTEATQVYPKLYLSPRIEHALGGSS
          N.TGEFSARFLLKL.VDFSNIPTY.LKDVNEDPGED.ALLSVSFEDTEATQVYPKLYLSP.IEHALG.SS
Retrocopy N*TGEFSARFLLKLLVDFSNIPTYRLKDVNEDPGEDTALLSVSFEDTEATQVYPKLYLSP*IEHALGSSS

Parental  ALHIPAFPGGGCLIDYVPQVCHLLTNKVQYVIQGYHKRREYIAAFLSHFGTGVVEYDAEGFTKLTLLLMW
          ALHIPAFPGGG.LIDYVPQVCHLLTNKVQYVIQGYHKR.EY.AAFLSHFGTGV.EYDAEGFTKLTLLLMW
Retrocopy ALHIPAFPGGGYLIDYVPQVCHLLTNKVQYVIQGYHKRKEYTAAFLSHFGTGVMEYDAEGFTKLTLLLMW

Parental  KDFCFLVHIDLPLFFPRDQPTLTFQSVYHFTNSGQLYSQAQKNYPYSPRWDGNEMAKRAK
          KDFCFLVHIDLPLFFP..QPTLTFQSVYHFT.S.QLYSQA.KNYPYSPRWDGNE..KRAK
Retrocopy KDFCFLVHIDLPLFFP--QPTLTFQSVYHFTKSRQLYSQAPKNYPYSPRWDGNEITKRAK

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_1626 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	ENSOGAG00000007335	1 retrocopy	retro_ogar_1626 ,