RetrogeneDB ID: retro_ogar_2444

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873624.1:108088..109212(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CEPT1
• Ensembl ID: ENSOGAG00000010799
• Aliases: None
• Description: choline/ethanolamine phosphotransferase 1 [Source:HGNC Symbol;Acc:24289]

Sequence

>retro_ogar_2444
CCTCTGAGTGCAGCACAGCTGCTGCGGATGATAGAGCACTGTTACAGCACGGCCAGTGTCCTGCTGCTTCAGCCGCCTCT
GCAGCTCTACTGGACCTGGCTGCTCCAGTGGATCCCACTCTGGATGGCCCCCAACTCCATCACCCGCCTTGGCTCGTCAT
CAACATGCTCACCACGCTGGTGCTCACCTCCTACTGCCCCACGGCCACCTAGGAGGCACCATACTGGAGATACCTACTAT
GCGCCCTGGGACTCTTTATCTACCAGTCACTGGATGCTACTGACAGGAAACAAGCCAGAAGAACAAATTCATGTTCTCCT
TTAGGGGAACTCTTTGACCATGGTTGTGACTCTCTTTCTACAGTGTTTATGGCAGTGGGAGCTTCAGTTGCTGCTGGCTT
AGGAACTCACCCTGACTGGTTGTTTTTCTGCTCTTTTATCTGGAGGTTCATGTTCTATTGTGCTCACTGGCCGATTAACG
TTTCAGGCATGTTGAGATTTGGAAAATTGGATGTAACTGAAATTCAAATAGCTTTAGTGATTGTCCTTGTGTTGTCTGCA
TTTGGAGGAGCAACAGTGTGGGACTATACAATACCCATTCTAGAAATAAAACTAAAGATCTTCCCAGTTCTCGGAGTAAT
AAGTAGAACAATATTTTCCTGTATGAATTATTTCCGCGTTATCCTCCATGGTGGCGTTAGCAAGAGTGGATCCCCTATAG
CAGGCACCAGTGTCTTGTCACCTGGACTCCACATAGGACTAATTATTATACTGGCAATAATGATCTACAAAAAGTCTGCA
ACTAACGTGTTTGAAAAGCATCCTTGTCTTTATACCCTAACGTTTGGGTCTGTCTTTGCTAAAGTCTCACAAAAATTGAT
GATAGCTCACATGACCAAGAGTGAACTGTATCTTCAAGACACTATATTTTGGGGGCCAGGTCTGTTGTTTTTAGACCAGT
ACTTTAATAATTTTATAGATTAATATGCTGTTCTATGGATAGCACTGGTAATTTCTTCACTTGATATGATGATATACTTT
AGTGCTTTGTGCCTGCAAATCTCAAGACACCTTCATCTAAATATCTTCAGGACATCATAACATAAAGCACCCAAACAGGA
TCAC

Alignment

ORF - retro_ogar_2444 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.44 %
• Parental protein coverage: 90.14 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PLSRHQLKRLEEHRYQSAGRSLLEPLMQGYWEWLVGRVPSWIAPNLITIIGLS-INICTTILLVFYCPTA
          PLS..QL.R..EH.Y..A...LL.P..Q.YW.WL....P.W.APN.IT..G.S.IN..TT..L..YCPTA
Retrocopy PLSAAQLLRMIEHCYSTASVLLLQPPLQLYWTWLLQWIPLWMAPNSITRLGSS<INMLTTLVLTSYCPTA

Parental  TEQAPLWAYIACACGLFIYQSLDAIDGKQARRTNSSSPLGELFDHGCDSLSTVFVVLGTCIAVQLGTNPD
          T..AP.W.Y..CA.GLFIYQSLDA.D.KQARRTNS.SPLGELFDHGCDSLSTVF...G...A..LGT.PD
Retrocopy T*EAPYWRYLLCALGLFIYQSLDATDRKQARRTNSCSPLGELFDHGCDSLSTVFMAVGASVAAGLGTHPD

Parental  WMFFCCFAGTFMFYCAHWQTYVSGTLRFGIIDVTEVQIFIIIMHLLAVIGGPPFWQSMIPVLNIQMKIFP
          W.FFC.F...FMFYCAHW...VSG.LRFG..DVTE.QI...I...L...GG...W...IP.L.I..KIFP
Retrocopy WLFFCSFIWRFMFYCAHWPINVSGMLRFGKLDVTEIQIALVIVLVLSAFGGATVWDYTIPILEIKLKIFP

Parental  ALCTVAGTIFSCTNYFRVIFTGGVGKNGSTIAGTSVLSPFLHIGSVITLAAMIYKKSAVQLFEKHPCLYI
          .L.....TIFSC.NYFRVI..GGV.K.GS.IAGTSVLSP.LHIG..I.LA.MIYKKSA...FEKHPCLY.
Retrocopy VLGVISRTIFSCMNYFRVILHGGVSKSGSPIAGTSVLSPGLHIGLIIILAIMIYKKSATNVFEKHPCLYT

Parental  LTFGFVSAKITNKLVVAHMTKSEMHLHDTAFIGPALLFLDQYFNSFIDEYIVLWIALVFSFFDLIRYCVS
          LTFG.V.AK...KL..AHMTKSE..L.DT.F.GP.LLFLDQYFN.FID.Y.VLWIALV.S..D...Y...
Retrocopy LTFGSVFAKVSQKLMIAHMTKSELYLQDTIFWGPGLLFLDQYFNNFID*YAVLWIALVISSLDMMIYFSA

Parental  VCNQIASHLHIHVFRIKVSTAHSNHH
          .C.QI..HLH...FR.....A....H
Retrocopy LCLQISRHLHLNIFRTS*HKAPKQDH

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_2444 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007908	3 retrocopies	retro_chof_1945, retro_chof_241, retro_chof_2710,
Dasypus novemcinctus	ENSDNOG00000017013	1 retrocopy	retro_dnov_3,
Otolemur garnettii	ENSOGAG00000005453	1 retrocopy	retro_ogar_3321,
Otolemur garnettii	ENSOGAG00000010799	1 retrocopy	retro_ogar_2444 ,