RetrogeneDB ID: retro_ogar_804

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873528.1:9719706..9720857(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CUL2
• Ensembl ID: ENSOGAG00000005046
• Aliases: None
• Description: cullin 2 [Source:HGNC Symbol;Acc:2552]

Sequence

>retro_ogar_804
AAAGAAGCTTCAAATTTATTACAAGAATGAAACTGCTTACAGTACATGGAAAAGGTTCTAGGTAGATTAAAAGTTGAAGA
AATTCAATGTCGGAAATACTCCATCTAAGTTCATATACTAAAGTGATACATGAATGTCAGCAACAAATGGTAGAAGAACA
CTTATTTACACGCAGAATGTCATAACATCATTTGCCAAGAGAAAAAAAAAATGACATGGCAAATACATATGTCTTACTCT
GTGCTGTGTCCAGTGCTTTACCGCATATGATTCAGGAGCTGCAAAACCATATCCGTGATGAGGGTCTTAGAGCAACCAGT
AACCTTACTCAGGAAAATACACCAACTCTATTTGTGGGATCAGTTTTGGAAGTACGTGGTAAATTTGTTCAACTGATTAA
CACTGTTTGAGTGGTGATCAGCACTTTATGACGACATTGGGTAAGGCCCTACATCAGTTATCAATTACAGAGAACCCAAG
TCTGTTTGCAAAGCACCTGAACTGCTTGCTAAGAACTGTGACAACTTACTAAAGAAATCAGCAAAAGAAACGACTGAGAA
TGAAGTAGAAGACAAACTCATAAGCTTCATGACTATTTTCAAATATATTGATAAAGATGTTTTTCAAAAGTTCTATGCAA
GAATACTGGCAAAACATCTAATTCATGGATTATCTATGTTTATGGATTCCAAAGAAGCCGTGATTAATAAACTAAAACAA
GCCTGTGGTTATGAGTTACCAGCAAGCTATATCGGATGTATACAGATATGAGTGTCAGTGTTGATCTCAACAAAAAGTTC
AACAATTTTACCAAAAACCAAGACACAGTAATAGATTGGGGAATTAGTTTTCAAATGTATGCTCTACAGGCTGGTGCATG
GACTCTTACTCAGGCTCCTTCATCTACATTTGCAATTCCCTAGGAATTAGACAAAAGGGTGCCGGTGTTTGAACTATTTT
AAAGCCAGTATTTTAGTGGAAGGAAACTGACATGGTTATATTATCTGTGTACAGATGAAGTTAAAGTGAACTATTTGGGC
AAACCATACATAGCCATGGTCACAACATACCAAATGGCAGTCCTTCTTGCCTTTAATAACAGTGAAATTGTTAGCTATAA
AGAACTTCAAGAAACTGACAAAAACAATCAA

Alignment

ORF - retro_ogar_804 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.54 %
• Parental protein coverage: 51.74 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  QEASNLLQESNCSQYMEKVLGRLKDEEIRCRKY-LNASSYTKVIHECQQRMVADHLQFLHAECHNIIRQE
          .EASNLLQE.NC.QYMEKVLGRLK.EEI.CRKY.L..SSYTKVIHECQQ.MV..HL.......H...R..
Retrocopy KEASNLLQE*NCLQYMEKVLGRLKVEEIQCRKY<LHLSSYTKVIHECQQQMVEEHLFTRRMS*HHLPRXX

Parental  KKNDMANMYVLLRAVSTGLPHMIQELQNHIHDEGLRATSNLTQENMPTLFVESVLEVHGKFVQLINTV-L
          ...DMAN.YVLL.AVS..LPHMIQELQNHI.DEGLRATSNLTQEN.PTLFV.SVLEV.GKFVQLINTV.L
Retrocopy XX-DMANTYVLLCAVSSALPHMIQELQNHIRDEGLRATSNLTQENTPTLFVGSVLEVRGKFVQLINTV<L

Parental  NGDQHFMSALDKAL-TSVVNYREPKSVCKAPELLAKYCDNLLKKSAKGMTENEVEDKLTSFITVFKYIDD
          .GDQHFM..L.KAL.TSV.NYREPKSVCKAPELLAK.CDNLLKKSAK..TENEVEDKL.SF.T.FKYID.
Retrocopy SGDQHFMTTLGKAL<TSVINYREPKSVCKAPELLAKNCDNLLKKSAKETTENEVEDKLISFMTIFKYID-

Parental  KDVFQKFYARMLAKRLIHGLSMSMDSEEAMINKLKQACGYEF-TSKLHRMYTDMSVSADLNNKFNNFIKN
          KDVFQKFYAR.LAK.LIHGLSM.MDS.EA.INKLKQACGYE..TSKL.RMYTDMSVS.DLN.KFNNF.KN
Retrocopy KDVFQKFYARILAKHLIHGLSMFMDSKEAVINKLKQACGYEL<TSKLYRMYTDMSVSVDLNKKFNNFTKN

Parental  QDTVIDLGISFQIYVLQAGAWPLTQAPSSTFAIPQELEKSVQMFELFYSQHFSGRKLTWLHYLCTGEVKM
          QDTVID.GISFQ.Y.LQAGAW.LTQAPSSTFAIP.EL.K.V..FELF.SQ.FSGRKLTWL.YLCT.EVK.
Retrocopy QDTVIDWGISFQMYALQAGAWTLTQAPSSTFAIP*ELDKRVPVFELF*SQYFSGRKLTWLYYLCTDEVKV

Parental  NYLGKPYVAMVTTYQMAVLLAFNNSEIVSYKELQDSTQMNE
          NYLGKPY.AMVTTYQMAVLLAFNNSEIVSYKELQ.....N.
Retrocopy NYLGKPYIAMVTTYQMAVLLAFNNSEIVSYKELQETDKNNQ

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_804 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 3 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000001282	2 retrocopies	retro_ogar_2069, retro_ogar_2642,
Otolemur garnettii	ENSOGAG00000005046	3 retrocopies	retro_ogar_1871, retro_ogar_2954, retro_ogar_804 ,
Otolemur garnettii	ENSOGAG00000014715	1 retrocopy	retro_ogar_3491,