RetrogeneDB ID: retro_ogar_3400

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873818.1:623573..624296(-)
• 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_3400
GACGAGATGGAAGCCCATGCTGCCGATGCCGTCAAGTCGCCTGAAGGTGATGTGGCTGCGTGCGAGCCAGAGCCTCTTAG
GAAGCAACCAGAGGGCCTGCCTTTGCTGGAGTTTGTTGGCGAGGCGGGTTACGGCCCCAGCACTGACGGGTCACTTCCTT
CCACACCTCCCCCAGCAGAGGAGGAGGATGAGTTATACTGGCAGTCGCTGGAGATCATCTCTTGGTACCTTTGGGAGCTG
GTGACCAGCACCAAGGATGCAAAGCCAATGAGAAGCAGGGCAGGAGGTTCCAGGAAGGCGCTGGAGAGCTTGCGCTGCGT
TGGGGACGAGGTGCAGCGCAACCACGAGATGGCCTTCTGAGGCATGCTTCGCAAACTGGACATCAAAACTGGAGAGGATA
TCAAATCTTTGTCTTGAGTGATGGTCCATGTTTTCAGTTACGGCATAACAAATTGGGGCAGGATTGTGACCCTAATTTCT
TTTGGTGGCTTTGTGGCCAAGCACCTGAAGACCATAAACCAAGAAGGCTATGTCGAACCGCTAGCAGAAAATATCGCAGA
TGTCCTTGTGAGGACAAAACGAGGCTGGCTAGTCAAACAACGAGGCTGGGATGGCTTTGTGGAGTTCTTCCCCCTGGAAG
ACCTGGAAAGCAGCGTCAGAAACGTGCCGCTGGCTTTTGCAAGTGTTGCTGGAGTAGGAGCTGGTTTGGCCTATCTAATA
AGA

Alignment

ORF - retro_ogar_3400 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.03 %
• Parental protein coverage: 69.14 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EEMEAPAADAIMSPEDELDGYEPEPLGKRPAVLPLLELVGEASNGPSTDGSLPSTPPPAEEEEDELYRQS
          .EMEA.AADA..SPE......EPEPL.K.P..LPLLE.VGEA..GPSTDGSLPSTPPPAEEE.DELY.QS
Retrocopy DEMEAHAADAVKSPEGDVAACEPEPLRKQPEGLPLLEFVGEAGYGPSTDGSLPSTPPPAEEE-DELYWQS

Parental  LEIISRYLREQATGAKDAKPMGRAGAASRKALETLRRVGDGVQRNHETAFQGMLRKLDIKNEDDVKSLSR
          LEIIS.YL.E..T..KDAKPM......SRKALE.LR.VGD.VQRNHE.AF.GMLRKLDIK...D.KSLS.
Retrocopy LEIISWYLWELVTSTKDAKPMRSRAGGSRKALESLRCVGDEVQRNHEMAF*GMLRKLDIKTGEDIKSLS*

Parental  VMVHVFSDGVTNWGRIVTLISFGAFVAKHLKSINQESCIEPLAESITDVLVRTKRDWLVKQRGWDGFVEF
          VMVHVFS.G.TNWGRIVTLISFG.FVAKHLK.INQE...EPLAE.I.DVLVRTKR.WLVKQRGWDGFVEF
Retrocopy VMVHVFSYGITNWGRIVTLISFGGFVAKHLKTINQEGYVEPLAENIADVLVRTKRGWLVKQRGWDGFVEF

Parental  FHVEDLEGGIRNVLLAFAGVAGVGAGLAYLIR
          F..EDLE...RNV.LAFA.VAGVGAGLAYLIR
Retrocopy FPLEDLESSVRNVPLAFASVAGVGAGLAYLIR

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_3400 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,