RetrogeneDB ID: retro_ogar_2493

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873628.1:5243842..5244580(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000028826
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MCL1
• Ensembl ID: ENSOGAG00000016421
• Aliases: None
• Description: myeloid cell leukemia sequence 1 (BCL2-related) [Source:HGNC Symbol;Acc:6943]

Sequence

>retro_ogar_2493
CGCACGTCGCTACCAGACGAGATGGAATCCCATGCTGCCGATGCCGTCAAGTCGCCCGAAAGTGATGTGGCCGCGTGCGA
GCCGGAGCCTCTCGGAAAGCAACCGGAGAGCCTGCCTTTGCTGGAGTTTGTCGGCGAGGCCGGTAACGGCTCCAGCACTG
AAGGGTCGCTGCCTTCCACACCTCCCCCAGTAGAGGAGGATGATGAGTTATACCGGCAGTCGCTGGAGATCATCTCTCGG
TACCTTTGGGAGCAGGCGACCGGCACCAAGGATGCGAAGCCAATGAGCATCAGGGCAGGAGGCTCCAGGAAGGCGCTGGA
GACCCTGCGCCGCGTCGGGGACGAGGTGCAGCGCAACCACGAGATAGCCTTCCAAGGCATGCTTCGCAGACTGGACATCA
AAACCGGCGAGGATATCAAATCTTTGTCTCGAGTGATGGTCCATGTTTTCAGTTACGGCATAACAAATTGGGGCAGGATC
GTGACCCTAATTTCTTTTGGTGGCTTTGTGGCCAAGCACCTGAAGGCCATAAACCAAGAAAGCTACGTCGAACCGCTAGC
AGAAAATATCGCAGATGTCCTTGTGAGGGCAAAACGAGACTGGCTAGTCAAACAACGAGGCTGGGATGGCTTTGTGGAGT
TCTTCCACCTGGAAGACATGGAAAGCAGCGTCAGAAACGTGCTGCTGGCTTTCGCAGGTGTTGCTGGAGTAGGAGCTGGT
TTGGCCTATCTAATAAGA

Alignment

ORF - retro_ogar_2493 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.14 %
• Parental protein coverage: 70.57 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RAAPREEMEAPAADAIMSPEDELDGYEPEPLGKRPAVLPLLELVGEASNGPSTDGSLPSTPPPAEEEEDE
          R.....EME..AADA..SPE......EPEPLGK.P..LPLLE.VGEA.NG.ST.GSLPSTPPP.EE..DE
Retrocopy RTSLPDEMESHAADAVKSPESDVAACEPEPLGKQPESLPLLEFVGEAGNGSSTEGSLPSTPPPVEED-DE

Parental  LYRQSLEIISRYLREQATGAKDAKPMGRAGAASRKALETLRRVGDGVQRNHETAFQGMLRKLDIKNEDDV
          LYRQSLEIISRYL.EQATG.KDAKPM......SRKALETLRRVGD.VQRNHE.AFQGMLR.LDIK...D.
Retrocopy LYRQSLEIISRYLWEQATGTKDAKPMSIRAGGSRKALETLRRVGDEVQRNHEIAFQGMLRRLDIKTGEDI

Parental  KSLSRVMVHVFSDGVTNWGRIVTLISFGAFVAKHLKSINQESCIEPLAESITDVLVRTKRDWLVKQRGWD
          KSLSRVMVHVFS.G.TNWGRIVTLISFG.FVAKHLK.INQES..EPLAE.I.DVLVR.KRDWLVKQRGWD
Retrocopy KSLSRVMVHVFSYGITNWGRIVTLISFGGFVAKHLKAINQESYVEPLAENIADVLVRAKRDWLVKQRGWD

Parental  GFVEFFHVEDLEGGIRNVLLAFAGVAGVGAGLAYLIR
          GFVEFFH.ED.E...RNVLLAFAGVAGVGAGLAYLIR
Retrocopy GFVEFFHLEDMESSVRNVLLAFAGVAGVGAGLAYLIR

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_2493 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 2 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000016421	4 retrocopies	retro_ogar_1048, retro_ogar_2493 , retro_ogar_2494, retro_ogar_3400,
Oreochromis niloticus	ENSONIG00000006658	1 retrocopy	retro_onil_27,