RetrogeneDB ID: retro_ogar_3418

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873824.1:185406..186160(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000015872
• Aliases: None
• Description: None

Sequence

>retro_ogar_3418
TTTGGCTATGGAAAGGGGAAGTGTACTAAGCAAGGTCCATCCGGAGCCCACCAGACACTTTTGGAGATGACAAACCTGAA
GATCTTGAAGAGGCAAGTCCATTTTCTTTTAAAGAATTTCTGAAAACCAAGAACATCAGCTTGTCCAAAGAAGATGCAAC
CAACAGAATTTATTCAAAGGAAGCCTGGAAGCACTCAGTGAGACTCGACCACAACTCTCCGACCACCTAGCCTGTGGGGT
ATGACCTGGATTATCAGCAGCCATTTTTCCAAGACCCAACAGGAGCTAGCGACCTCCTAGACAAGGAGGAAGATGAAGAT
GACGGGTGGACTGAATCCTATCTGCCATCCCCCATGGAGCAGACTCACTCTGCAAGGGTCAATGCCAGCACATCAGCCTG
TGGCACTTACCTGTCATTTTTTTTTTCCACTCCGTAGGAGCTGATGGCGCCCAAGTCTCTGCCCTCAGGGATGTTGAGTG
AAACACACTCTGGTGTGTCTCCAGATCTCCAGCAGGCAGTCCTGGCACAGACTTTGCAGCTCACGGAGCGTTTCCAGGAG
ACTGGAACCTAGGAATGCTGCAGATAAGTTAGGAGGCACTGAAACATGAAAATTCTAAGCTAAGGAGAGAGCTGAATGAG
ATTCAGAGCTTCTCTGAAACTCAAAGAGAAATGGTCAGGACACTTGAGTGGAAATTAGAAGCAAAAATGATCAAGGAGGA
GAGTGACTACCATGACCTGGAGTCGGTGGTTCAG

Alignment

ORF - retro_ogar_3418 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.5 %
• Parental protein coverage: 57.7 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  FGYGKGKCTKQGPSGAHET-RFGDDKLEDLEEANPFSFKEFLKTKNLSLSKEEATNRIYSKEASRHSVRL
          FGYGKGKCTKQGPSGAH.T..FGDDK.EDLEEA.PFSFKEFLKTKN.SLSKE.ATNRIYSKEA..HSVRL
Retrocopy FGYGKGKCTKQGPSGAHQT<TFGDDKPEDLEEASPFSFKEFLKTKNISLSKEDATNRIYSKEAWKHSVRL

Parental  DHNSPTNQPVGYGLEYQQPFFEDPTGAGDLLDEEEDEDDGWTGSYLPSAMEQTHSARVTASTSPCGTYLS
          DHNSPT..PVGY.L.YQQPFF.DPTGA.DLLD.EEDEDDGWT.SYLPS.MEQTHSARV.ASTS.CGTYLS
Retrocopy DHNSPTT*PVGYDLDYQQPFFQDPTGASDLLDKEEDEDDGWTESYLPSPMEQTHSARVNASTSACGTYLS

Parental  -FFSTPSELTGPKSLPSWTLSDTDSHVSPG-SPAGSPGTDFAAHGESLGDRHLRTLQISYEALKDENSKL
          ....TP.EL..PKSLPS..LS.T.S.VSP..SPAGSPGTDFAAHG...GD..L..LQIS.EALK.ENSKL
Retrocopy XXXXTP*ELMAPKSLPSGMLSETHSGVSPD<SPAGSPGTDFAAHGAFPGDWNLGMLQIS*EALKHENSKL

Parental  RRKLNEVQSFSETQTEMVRTLERKLEAKMIKEESDYHDLESVVQ
          RR.LNE.QSFSETQ.EMVRTLE.KLEAKMIKEESDYHDLESVVQ
Retrocopy RRELNEIQSFSETQREMVRTLEWKLEAKMIKEESDYHDLESVVQ

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_3418 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 8 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000165689	1 retrocopy	retro_hsap_1944,
Gorilla gorilla	ENSGGOG00000010905	1 retrocopy	retro_ggor_1414,
Mus musculus	ENSMUSG00000026927	3 retrocopies	retro_mmus_1545, retro_mmus_3492, retro_mmus_711,
Nomascus leucogenys	ENSNLEG00000008186	1 retrocopy	retro_nleu_891,
Otolemur garnettii	ENSOGAG00000015872	1 retrocopy	retro_ogar_3418 ,
Pongo abelii	ENSPPYG00000019772	2 retrocopies	retro_pabe_1612, retro_pabe_256,
Pan troglodytes	ENSPTRG00000021555	1 retrocopy	retro_ptro_1300,
Rattus norvegicus	ENSRNOG00000018876	2 retrocopies	retro_rnor_1215, retro_rnor_2770,