RetrogeneDB ID: retro_ogar_1487

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873549.1:10627690..10628151(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NDUFA8
• Ensembl ID: ENSOGAG00000015093
• Aliases: None
• Description: NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 8, 19kDa [Source:HGNC Symbol;Acc:7692]

Sequence

>retro_ogar_1487
ATGCCCAGGAGCGTCGAGCTGTCCACTGTGGAGAAGCTGAAGTGCAGGAAGTGGAAGTCACTTCTGCTGTGTTCAGGCTG
CGGCCCATCGCTGTGGAGCTCAGCGATCAGCCCAGCAGGGGTTCCCGCTCTGTGGCTGGGACAGACAGACCCGAGGCCGT
GTTCAGATGAGGGCAACTGGTCAACGAGGGTGCTGTGGACTTCTGTAGGCAGAGGAAGCGTCACTGCGCAGAACCTTTGA
CCGAATATTGGACCTGCATTGATTATTCAGGACTGCAGTTACTTGGTCACTGTCACAAACAGCAGGCAAAGTTTGACGGT
TGTGTGCGGGACAAAGCAGGCTGGGTGCGGCCTGACCCGGGAGAACCGTCAGAAGTCACCCAGGTGAAAACAGACCGACC
TGTACCGGAGAGGCCCTGCCACTCAAGACCACGATCTGAGCCTGAGGCTGAGATCCAGGGA

Alignment

ORF - retro_ogar_1487 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.62 %
• Parental protein coverage: 90.7 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MPGIVELPTLEELK-VQEVKVSSAVLK-AAAHHFGAQCDKANKEFMLCRWEEK-DPRRCLEEG-KLVNKC
          MP..VEL.T.E.LK.VQEV.V.SAV...AAAH..GAQ...A...F.LC.W....DPR.C..EG..LVN..
Retrocopy MPRSVELSTVEKLK<VQEVEVTSAVFR<AAAHRCGAQ-RSAQQGFPLCGWDRQ<DPRPCSDEG<QLVNEG

Parental  ALDFFRQIKRHCAEPFTEYWTCIDYSGEQLFRHCRKQQAKFDECVLDKLGWVRPDLGELSKVTKVKTDRP
          A.DF.RQ.KRHCAEP.TEYWTCIDYSG.QL..HC.KQQAKFD.CV.DK.GWVRPD.GE.S.VT.VKTDRP
Retrocopy AVDFCRQRKRHCAEPLTEYWTCIDYSGLQLLGHCHKQQAKFDGCVRDKAGWVRPDPGEPSEVTQVKTDRP

Parental  IPENPYHSRPRPAPNPEIEG
          .PE.P.HSRPR..P..EI.G
Retrocopy VPERPCHSRPRSEPEAEIQG

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_1487 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000015093	1 retrocopy	retro_ogar_1487 ,
Rattus norvegicus	ENSRNOG00000005668	1 retrocopy	retro_rnor_2583,
Sarcophilus harrisii	ENSSHAG00000011368	1 retrocopy	retro_shar_198,
Sus scrofa	ENSSSCG00000005528	1 retrocopy	retro_sscr_477,