RetrogeneDB ID: retro_ogar_562

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873523.1:1245564..1246645(-)
• Located in intron of: ENSOGAG00000002108

Retrocopy information

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

Parental gene information

• Parental gene symbol: HENMT1
• Ensembl ID: ENSOGAG00000013441
• Aliases: None
• Description: HEN1 methyltransferase homolog 1 (Arabidopsis) [Source:HGNC Symbol;Acc:26400]

Sequence

>retro_ogar_562
ATATACATATAGCAATACCAGCTTATTAAAGATTTAGTGAATCTACATGAAACCAAGAAAGTTGCAGACCTGGGATGTGG
TGATACTTCGCTCATAAGGCAGTTAAAAGTGTTTCCACACATAGAATGGCTTGTTGGAGTAGACGCTGATGGGGATAAAT
TAATGATGGAAAGGCAAAAAGTTGGCTCCTGTTCCGGGGCATTTTCTGGAACCCTGAGATCGTGATTTGACTATTACATG
TGTTATAGCTCTGTTGTGGAGAGAGACTCTTGTTTGCTTGGATTCAACTTGATAACATGTATTGAATTAATAGAACATTT
GGATTCAAATGATCCAGCAGACTTCCTGAAGTGGTATTTGGGTACTTATCTCCATCCATGGTCATCATCAGCACACCAAA
CTTTGAATTCAGTCCCTTGTTCTCCAGTGCTCACCTTAAGAGATTCAGATCACAAATTTGAGTGGACTAGAATGGAATTT
CAGAACTGGGCTTTACAGGCGGCAAATCTCTATAATTACTCTGTGGAGTTTACTGGCGTGGGAGCTCCACCAGCTGGTGC
TGAGATTGTTGGATTCTGTACACAGATAGATGCCTTCCGGAAAAATGGTGGAAAGGCAGCTGAATTGTGTGCTGCAGAGC
AGCATGCTTATAAAGCTGTTTTTATGGCCTCATACCCAAGTTTACAGGAAGAAAAGTTCGTCCTACTTGTCTTGGTTGGT
GAAGTGTCCCCCCGACAAGTGGAAAGCTTGAGAGTGTCACATCTGCAGAGGCTGAAAGAACAGAGGGATAGGGAACTGAG
TAATGAGCCAGCAGATACTGGCTGAGAGACCCCCGTGCCTATGCTTTGGATCAGCCTTTACAGAAGTTGAAAGAGACAGG
ATAAAGAAGTCTCCTAACCTGTTCTGTGTTGAAGATCAGTTCTCTGTGTCCCTGAAAAGACTCCTCGCATATCCCAAGTT
GAACCACTCACGTATTAGTGAAGAAAGAATGAGATCAGTCATTGCTGGCTCGCTGATCTTGAGCTATGATGGCTCTGCTG
TGGTGGTTGACCTGTATGATTATTTTGATTATCTGTTTGAT

Alignment

ORF - retro_ogar_562 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.62 %
• Parental protein coverage: 93.01 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  LYRQRYQFVKDLVDLHQPKKVADLGCGDTSLIRQLKVFPCIELLIGVDIDGDKLR-WKGEKLAPVLGHFL
          .Y...YQ..KDLV.LH..KKVADLGCGDTSLIRQLKVFP.IE.L.GVD.DGDKL..WKG.KLAPV.GHFL
Retrocopy IYI*QYQLIKDLVNLHETKKVADLGCGDTSLIRQLKVFPHIEWLVGVDADGDKLM>WKGKKLAPVPGHFL

Parental  QPRELNLTIT-LYCGSVVERDSRLLGLDLITCIELIEHLDSDDLA-RFPEVVFGYLSPSMVVISTPNSEF
          .P....LTIT.....SVVERDS.LLG..LITCIELIEHLDS.D.A.R.PEVVFGYLSPSMV.ISTPN.EF
Retrocopy EP*DRDLTIT<MCYSSVVERDSCLLGFNLITCIELIEHLDSNDPA<RLPEVVFGYLSPSMVIISTPNFEF

Parental  NPLF-PAVTLRDSDHKFEWTRMEFQNWASHAANLYNYSVEFTGVGAPPAGAESVGFCTQIGVFRKNGGKA
          .PLF.P..TLRDSDHKFEWTRMEFQNWA..AANLYNYSVEFTGVGAPPAGAE.VGFCTQI..FRKNGGKA
Retrocopy SPLF>PVLTLRDSDHKFEWTRMEFQNWALQAANLYNYSVEFTGVGAPPAGAEIVGFCTQIDAFRKNGGKA

Parental  AESCVLEQHAYKVVFTASYPSLQQERFLRLVMVSEVS-RQVESLRVRYLRRLKEQRDKELGNEPADTGPE
          AE.C..EQHAYK.VF.ASYPSLQ.E.F..LV.V.EVS.RQVESLRV..L.RLKEQRD.EL.NEPADTG.E
Retrocopy AELCAAEQHAYKAVFMASYPSLQEEKFVLLVLVGEVSPRQVESLRVSHLQRLKEQRDRELSNEPADTG*E

Parental  APM-LCFGPAFTEVERDRIKKSPKPFCVGNKFFVPLKRLLAYPKLNRLCISEERMRSVIASSLILSCDGS
          .P..LCFG.AFTEVERDRIKKSP..FCV...F.V.LKRLLAYPKLN...ISEERMRSVIA.SLILS.DGS
Retrocopy TPV>LCFGSAFTEVERDRIKKSPNLFCVEDQFSVSLKRLLAYPKLNHSRISEERMRSVIAGSLILSYDGS

Parental  AVVVEFHNSRNVKFE
          AVVV.........F.
Retrocopy AVVVDLYDYFDYLFD

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_562 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 3 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000004357	1 retrocopy	retro_amel_532,
Otolemur garnettii	ENSOGAG00000013441	4 retrocopies	retro_ogar_1961, retro_ogar_2013, retro_ogar_2135, retro_ogar_562 ,
Sus scrofa	ENSSSCG00000006846	1 retrocopy	retro_sscr_80,