RetrogeneDB ID: retro_ogar_3295

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873769.1:135601..137354(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000030195
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CEP85L
• Ensembl ID: ENSOGAG00000009073
• Aliases: None
• Description: centrosomal protein 85kDa-like [Source:HGNC Symbol;Acc:21638]

Sequence

>retro_ogar_3295
AAACAGTCATCAACTCTGGACTGCAAGTACAAATTTGAGAGCTACAGCAAAGAGGACTTTAGTGCCTCTTCCTCTACTCA
TAGGAGACAGGCCTTAGACATGACATAGAGTGACTTACCTAAGCCCATTATGATGAACTCAAAGGATTTTGAATCTCTAA
AATATTTAATGCCTAGTCAACAGGCAGTAGATGGAGTTCCCATTCAGCCCTCTGTGAGGACTCAGTTGTGGCTTATAGAA
CAGTTGTGGACTAACCCTTTGGAAGGTAGAACTACAGAAGATTCTTACAGTTTAGCTCCTTAGCAACAACAGCAAATTGA
AGAGTTTCGATGAGGAACTGAAGCACCAAATACAGGTTTTGACTGGATCGTCTCATCAAAGTTATTTACCTTCTGACTAT
CAGGATTTCAGTCAGTGGGAATCAATGTTGAAAGTAAAAGAAGGATTTCTAAGGCAGAAAGAAATTGTAATTGATCGGCA
GAAACAGCTAATTATTCACCTACAAGAGAAGATACAGGATAATGAATTATGGGCGCAACATGCCACGTTAGGACATTATG
TAAACTGTGAGGATTCTAATGTGGCTAGTTTGCAGCCACAGTATGAGGACACTTCACTCCAGTCTCCATTTTCAGAAGAA
TCAGTGTCCCATTCCCAGCAAGAAGAACTTGACCAAAAGCTTGCATCTCCTGAGAAAGAAGGTTTACAGCTCAATGAGTT
TCTCAAACAAAAAATAAGCCAATTTAGTGAGGAGAAGAAGAAATTGGAGGAAAAGCTTAAAACCAGAGATAGATACATCA
GTAGCCTGCAAAATAAATACCAGAAGCAATGTGAACAAAACAAAGAAAAGCAGAGAAGAATTGAGACCTTGGAAAAGTAT
CTGGCTGATCTTCCAACTCTAGATGATGTACAGAGTCAGAGTCTACAGCTGCAGGTTCTAGAAGAAAAAAATAAGAATTT
GCAAGAGACTTTGACAGCTACAGAAAAAAAGCTTGACGAGATCAAAAAACAATGTCAAGATAAAGAGGCCCAGTTAATAT
GCCAGAAAAAGAAAGAAAAAGAGTTAGTAACTACTGTTCAGAGTTTGCAACAAAAAGTAGAACGATGTCTTGAAGATGGA
ATTCGCCTCCCCATGTTAGATGCAAAACAGCTTCAGAACGAGAACGATAATCTCAGGGAGCAAAACGAGACTGCTCGTAA
GATAATAGACAGTCAACGAGGTGAGACTGACAGAATGACTTTAGAACTTCAGTCTATGCAAGGGAAACTTTCTAAAGAGA
AACTGGCCACTCAAAATATGATGGAGGAGCTGGAAAGGAAAGAAAGACGCCTACAGAGATTAACAAAAGCGTTGCTTGAA
AACCAAAGACAGACAGAAAAGATGCGCTCTTTAACGGATCAGGGGCAGGAAGCAGACCCCTTGGGACAGCTGACCCTTCT
TTCCAAACAGCCTCTATTTGATTTCACTGCGATTGATCAGCTGTTCAAGGAAATGTCCCATTGTTTGTTTGACTTGAAAG
CGTTGTGTAGTATTCTTCATCAGCGTGCTCAGGGCAAGGAGCCTGATCTTTCATTATTACTGGGAATCAGATCAATGAAT
TGTTCAGCTGAGGAGACCGAGAATGACCATAGTCAAGAATCACTCACTAAAAAATTGTCCGATGTGTGCCAGTTACGGAA
GGACATTGATGAGTTAAGGACTTCAATATCAGACTGCTATGCTCAGGACATAGGAGACAACTGCGTGACCCAG

Alignment

ORF - retro_ogar_3295 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.2 %
• Parental protein coverage: 83.24 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KRSSTLDCKYKFESCSKEDFRASSSTLRRQALDVTYSALPESKPIMMNSEGFESPKYLMLGQQAVDGVPI
          K.SSTLDCKYKFES.SKEDF.ASSST.RRQALD.T.S.LP..KPIMMNS..FES.KYLM..QQAVDGVPI
Retrocopy KQSSTLDCKYKFESYSKEDFSASSSTHRRQALDMT*SDLP--KPIMMNSKDFESLKYLMPSQQAVDGVPI

Parental  QPSVRTQMWLTEQLRTNPLEGRTTEDSYSLTPWPQQQIEEFRQGTEAPT-QVLTGSSRQSYSPSGYQDFS
          QPSVRTQ.WL.EQL.TNPLEGRTTEDSYSL.P..QQQIEEFR.GTEAP..QVLTGSS.QSY.PS.YQDFS
Retrocopy QPSVRTQLWLIEQLWTNPLEGRTTEDSYSLAP*QQQQIEEFR*GTEAPN>QVLTGSSHQSYLPSDYQDFS

Parental  KWESMLKIKEGLLRQKEIVIDRQKQQITHLHERIRDNELRAQHAMLGHYVNCDDSYVATLQPQYENTSLP
          .WESMLK.KEG.LRQKEIVIDRQKQ.I.HL.E.I.DNEL.AQHA.LGHYVNC.DS.VA.LQPQYE.TSL.
Retrocopy QWESMLKVKEGFLRQKEIVIDRQKQLIIHLQEKIQDNELWAQHATLGHYVNCEDSNVASLQPQYEDTSLQ

Parental  SPFSEESASHSQQEELEQKLASAEKEVLQLNEFLKQKISQFSEEKKKLEEKLKTRDRYISSLKKKCQKES
          SPFSEES.SHSQQEEL.QKLAS.EKE.LQLNEFLKQKISQFSEEKKKLEEKLKTRDRYISSL..K.QK..
Retrocopy SPFSEESVSHSQQEELDQKLASPEKEGLQLNEFLKQKISQFSEEKKKLEEKLKTRDRYISSLQNKYQKQC

Parental  EQNKEKQRRIETLEKYLADLPTLDDVQSQSLQLQVLEEKNKNLQETLIATEKKLEEFKKQCQDKETQLIC
          EQNKEKQRRIETLEKYLADLPTLDDVQSQSLQLQVLEEKNKNLQETL.ATEKKL.E.KKQCQDKE.QLIC
Retrocopy EQNKEKQRRIETLEKYLADLPTLDDVQSQSLQLQVLEEKNKNLQETLTATEKKLDEIKKQCQDKEAQLIC

Parental  QKKKEKELVTTVQSLQQKVERCLEDGIRLPMLDAKQLQNENDNLREQNETARKIIDSQQGEIDRMTLEIQ
          QKKKEKELVTTVQSLQQKVERCLEDGIRLPMLDAKQLQNENDNLREQNETARKIIDSQ.GE.DRMTLE.Q
Retrocopy QKKKEKELVTTVQSLQQKVERCLEDGIRLPMLDAKQLQNENDNLREQNETARKIIDSQRGETDRMTLELQ

Parental  SMQGKLSKEKLTTQNMIEELEKKERSLQRLTKALLENQRQTEEICSLMDQGQEADPSRQQTLLSKRPPFD
          SMQGKLSKEKL.TQNM.EELE.KER.LQRLTKALLENQRQTE...SL.DQGQEADP..Q.TLLSK.P.FD
Retrocopy SMQGKLSKEKLATQNMMEELERKERRLQRLTKALLENQRQTEKMRSLTDQGQEADPLGQLTLLSKQPLFD

Parental  LAVIDQLFKEMSYCLFDLKALCSILNQRAQGKEPNLSLLLGIRSMNCSAEETENDQSQETLTKKLSDVCQ
          ...IDQLFKEMS.CLFDLKALCSIL.QRAQGKEP.LSLLLGIRSMNCSAEETEND.SQE.LTKKLSDVCQ
Retrocopy FTAIDQLFKEMSHCLFDLKALCSILHQRAQGKEPDLSLLLGIRSMNCSAEETENDHSQESLTKKLSDVCQ

Parental  LRKDIDELRTTISDRYAQDMGDNCVTQ
          LRKDIDELRT.ISD.YAQD.GDNCVTQ
Retrocopy LRKDIDELRTSISDCYAQDIGDNCVTQ

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_3295 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000009073	1 retrocopy	retro_ogar_3295 ,