RetrogeneDB ID: retro_ogar_1048

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873534.1:5239752..5240471(-)
• Located in intron of: None

Retrocopy information

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

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_1048
GACGAGATGGAAGCCTATGCTGCCAATGCCATCAAGTCGCCCGAAGCTGGGGTGGCGGTGCACGACCCGGAGCCTCTCAG
GAAGCAACCAGAGCTCCTGCCTTTGCTGGAGTTTGTCGGGAGGCCGGGAACGGCCCCAGCACTGACGGGTCACTTCCTTC
CACACCTCCCCCAGCAGAGGAGGATGAGTTATACCGGCAGTAGCTAGAGATCATCTCTCCGTACCTTTGGGAGCAGGCGA
CCGGCACCAAGCATGCGAAGCCAATAAGCAGCAGGGCAGGAGGCTCCAGGAAGGCGCCGGAGACCTTGCGCCGTGTCGGG
GATGAGGTGCAGTCCAACCACGAGATGGCCTTCCGAGGCATGCTTCGTAAACTGGACATCAAAACCGGAGAGGATATCAA
ATCTTTGTCTCGAGTGATGGTCCATGTTTTCAGTTACGTTGTAACAAACTGGGGCAGGATTGTGACCCTAATTTCTTTTG
GTGGCTTTGTGGCCAAGCACCTGAAGACCATGAACCAAGAAAGCTACATCGAACCACTAGCAGAAAATATCGCAGACGTC
CTTGTGAGGACAAAACGAGACTGGCTAGTCAAACAATGAGACTGGGATGGCTTTGTGGAGTTCTTCCACCTCGAAGACCT
GGAAAGCTGCGTCAGAAACGTGCTGCTGGCTTTTGCAGGTGTTGCTGGAGTAGGAGCTGGTTTGGCCTATCTAATAAGA

Alignment

ORF - retro_ogar_1048 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.37 %
• Parental protein coverage: 69.14 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EEMEAPAADAIMSPEDELDGYEPEPLGKRPAVLPLLELVG-EASNGPSTDGSLPSTPPPAEEEEDELYRQ
          .EMEA.AA.AI.SPE.......PEPL.K.P..LPLLE.VG.EA.NGPSTDGSLPSTPPPAEE..DELYRQ
Retrocopy DEMEAYAANAIKSPEAGVAVHDPEPLRKQPELLPLLEFVG<EAGNGPSTDGSLPSTPPPAEE--DELYRQ

Parental  SLEIISRYLREQATGAKDAKPMGRAGAASRKALETLRRVGDGVQRNHETAFQGMLRKLDIKNEDDVKSLS
          .LEIIS.YL.EQATG.K.AKP.......SRKA.ETLRRVGD.VQ.NHE.AF.GMLRKLDIK...D.KSLS
Retrocopy *LEIISPYLWEQATGTKHAKPISSRAGGSRKAPETLRRVGDEVQSNHEMAFRGMLRKLDIKTGEDIKSLS

Parental  RVMVHVFSDGVTNWGRIVTLISFGAFVAKHLKSINQESCIEPLAESITDVLVRTKRDWLVKQRGWDGFVE
          RVMVHVFS..VTNWGRIVTLISFG.FVAKHLK..NQES.IEPLAE.I.DVLVRTKRDWLVKQ..WDGFVE
Retrocopy RVMVHVFSYVVTNWGRIVTLISFGGFVAKHLKTMNQESYIEPLAENIADVLVRTKRDWLVKQ*DWDGFVE

Parental  FFHVEDLEGGIRNVLLAFAGVAGVGAGLAYLIR
          FFH.EDLE...RNVLLAFAGVAGVGAGLAYLIR
Retrocopy FFHLEDLESCVRNVLLAFAGVAGVGAGLAYLIR

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_1048 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.

---

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,