RetrogeneDB ID: retro_ogar_3407

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873820.1:586763..587646(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: VPS26B
• Ensembl ID: ENSOGAG00000015370
• Aliases: None
• Description: vacuolar protein sorting 26 homolog B (S. pombe) [Source:HGNC Symbol;Acc:28119]

Sequence

>retro_ogar_3407
AGTTTTCTTGGAGGCTTTTTCGGTACAATTTGCGAAATTGATATTGTCCTTCATGATGGAGAAACCAGGAAAATGGCAGA
AATGAAAACTGAAGATGGCAAAGTGGAAAAACACTGTGTCTTCTATGATGCTGTGTCTGTTTCAGGGAAGGTAAACGTAG
CCTTTTAGCAACCTGGAAAGAAGCTAGAGCACCAGGGAATTAGAAATGAATTTGGAGGTCAAACTGAACTTTTCAACGAC
AAGAGTAATACTCATGAATTTGTAAACCTAGTGAAAGAACCAGCCCTACCTGGAGAACTGACTCAGAGCACAAGTTAGGA
TTTTGAATTTATGCAAGTTGAAAAGCCATCAGAATCTTACATGGGTGCCAATGTCCGCTTGAGGTATTTTCTTAAAGTGA
CAATAGTAAGAAGACTGACAGATTTGGTAAAAGAATATGATCTTATTGTTCACCAGCTTGCCACTTAATTCAGATGTTAA
AATCTGTCAAGTTGGAAGTGGGCATTGAAGATTGTCCACATAGAGAAATTAAATATAATAAATTAAAGTATCATGTAAAG
GATGTGATTGCTGGGAAAATTTACTTTCTATTAGTAAGAATAAAAATACAACATACGGAGTTACAATTGATCAAAAAGAG
ATAACAGGAACTGGACCCAGTACAACGGAAACAGAAACAATTGCCAAATGTGAAATAATGGACGGTGCACCAGTAAAAGA
CGAAACAATTCTAATAAGACTATTTTTAGCAGGGTATGACCCAATTCCAACAAGGAGAGATGTGAACAAAAAGTTTTCAG
TAAGATACTTTTTGAATTTAGTGCTTGTTGATGAGAAAGACAGAAGGTACTTCAAGCAGCAGGAGATCGTTTTATGGAGA
AAA

Alignment

ORF - retro_ogar_3407 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.43 %
• Parental protein coverage: 87.76 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SFFG--FGQSVEVEILLNDAESRKRAEHKTEDGKKEKYFLFYDGETVSGKVSLALKNPNKRLEHQGIKIE
          SF.G..FG...E..I.L.D.E.RK.AE.KTEDGK.EK...FYD...VSGKV..A...P.K.LEHQGI..E
Retrocopy SFLGGFFGTICEIDIVLHDGETRKMAEMKTEDGKVEKHCVFYDAVSVSGKVNVAF*QPGKKLEHQGIRNE

Parental  FIGQIELYYDRGNHHEFVSLVKDLARPGEITQSQAFDFEFTHVEKPYESYTGQNVKLRYFLRATISRRLN
          F.GQ.EL..D..N.HEFV.LVK..A.PGE.TQS...DFEF..VEKP.ESY.G.NV.LRYFL..TI.RRL.
Retrocopy FGGQTELFNDKSNTHEFVNLVKEPALPGELTQSTS*DFEFMQVEKPSESYMGANVRLRYFLKVTIVRRLT

Parental  DVVKEMDIVVHTLST-YPELNSSIKMEVGIEDCLHIEFEYNKSKYHLKDVIVGKIYFLLVRIKIKHMEID
          D.VKE.D..VH.L.T.......S.K.EVGIEDC.H.E..YNK.KYH.KDVI.GKIYFLLVRIKI.H.E..
Retrocopy DLVKEYDLIVHQLAT<LIQMLKSVKLEVGIEDCPHREIKYNKLKYHVKDVIAGKIYFLLVRIKIQHTELQ

Parental  IIK-RETTGTGPNVYHENDTIAKYEIMDGAPVRGESIPIRLFLAGYELTPTMRDINKKFSVRYYLNLVLI
          .IK..E.TGTGP....E..TIAK.EIMDGAPV..E.I.IRLFLAGY...PT.RD.NKKFSVRY.LNLVL.
Retrocopy LIK<KEITGTGPST-TETETIAKCEIMDGAPVKDETILIRLFLAGYDPIPTRRDVNKKFSVRYFLNLVLV

Parental  DEEERRYFKQQEVVLWRK
          DE..RRYFKQQE.VLWRK
Retrocopy DEKDRRYFKQQEIVLWRK

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_3407 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000015370	2 retrocopies	retro_ogar_3407 , retro_ogar_3408,