RetrogeneDB ID: retro_ogar_1939

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873576.1:8492166..8492835(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NCEH1
• Ensembl ID: ENSOGAG00000000976
• Aliases: None
• Description: neutral cholesterol ester hydrolase 1 [Source:HGNC Symbol;Acc:29260]

Sequence

>retro_ogar_1939
TGCTTGCTGCTCCCAGTGTGGGTGGCACTGGCGGCCTGTTATGTCTGAACCCCACTGCCAAGCTCTGTGTCCAATCTCTA
GCAGCTGATGCTGCAGGACAGGACTTTCTGGGGTACAAGGCAAGGGAGTAATCTGATACACTGCCTGGAACTGAGCCCTC
ACCTGCTTGCACTGAATTTTATCATTGTTTCTTTTGGCAAAAAAGAGCGCATAGTTGTCTGCCCAAGTGAGGGTGACGGA
CACTGACTTTGCTGGTGAGGAAGTCAGAGAACTTGAAGGCCCTCCAAAGCCAGAAGAAATGCAGGAGATATTGTTTATAT
CCACGGAGAGGGCTGGGCCCTGGCAAGGGTAAAAGTCAGGTATTCTGAGGAGCCCTGGACAGCGATGGCTGAGGAACTGA
ATGCTGTCATTGTCTCCACTGAATACGGCTAGTCCCAAAGGCTTATTTTCCTGAGCAAATTCACAATGTTGTATGTGCCG
CAAAGCATTTCCTGCAGCCAAAAGACTTAGGGAAGTAAATGGTGGATTCAGGCAGCATTTGCATTTCTGGTGGCAGTGCT
GGTGGAAATTTAGCCACTGCCCTCAGACAGCAGCTTAATCAAGACACCAACCTAAAAAAATAAGCTCAAACTGCAAGTCT
TAATTTATCCAGCCCTTCAATATTTAGAT

Alignment

ORF - retro_ogar_1939 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.86 %
• Parental protein coverage: 54.9 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  CVLLAALAALAAYYVYIPLPGSVSDPWKLMLLDATFRGAQQVSNLIHYLGLSHHLLALNFIIVSFGKK-T
          C.LL....ALAA.YV..PLP.SVS....LML.D.TF.G..Q.SNLIH.L.LS.HLLALNFIIVSFGKK..
Retrocopy CLLLPVWVALAACYV*TPLPSSVSNL*QLMLQDRTFWGTRQGSNLIHCLELSPHLLALNFIIVSFGKK>S

Parental  AWSSAQVKVTDTEFDGVEVRVFEGPRKPEEPLQR-SVVYVHGGGWALASAKIRYYDELCTVMAEELNAVI
          A..SAQV.VTDT.F.G.EVR..EGP.KP.E..Q....VY.HG.GWALA..K.RY..E..T.MAEELNAVI
Retrocopy A*LSAQVRVTDTDFAGEEVRELEGPPKP-EEMQE<DIVYIHGEGWALARVKVRYSEEPWTAMAEELNAVI

Parental  VSIEY-RLVPKVYFPEQIHDVVRATKHFLQPEILQKYMVDPGRICISGDSAGGNLAAALAQQFNQDANL-
          VS.EY.RLVPK.YFPEQIH.VV.A.KHFLQP..L.K.MVD.G.ICISG.SAGGNLA.AL.QQ.NQD.NL.
Retrocopy VSTEY<RLVPKAYFPEQIHNVVCAAKHFLQPKDLGK*MVDSGSICISGGSAGGNLATALRQQLNQDTNL>

Parental  KNKLKLQALIYPVLQALD
          KNKLKLQ.LIYP.LQ.LD
Retrocopy KNKLKLQVLIYPALQYLD

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_1939 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000000976	1 retrocopy	retro_ogar_1939 ,