RetrogeneDB ID: retro_ogar_2471

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873625.1:7268341..7269148(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PRMT1
• Ensembl ID: ENSOGAG00000011938
• Aliases: None
• Description: protein arginine methyltransferase 1 [Source:HGNC Symbol;Acc:5187]

Sequence

>retro_ogar_2471
ATGGGGGCAGTTGAGCTTCTGAACTGATTCATGGAGGTTTCCTGTGGCCAGGCAGAAAGCCGTGAGAAGTCCAATGCTGA
GGACATAATATCCAGAGATTAGTACTTTGACTTCTATGCCCACTTTGCTCAGCATGAGGAGATGCTGAAGGATGAGGTGT
GCACCCTCAGGTACCATAACTCTGTGTTTCACAATTGGCACCTCTTCAAGGACAAGGTAGTGCTGGACATGGGCTCAGGC
ACAAAGATCTTCTGCATGTTCACTGCCAAGACCAAGGCCCATAAGGTCACTGGGACTCAGTATTCTAGTATCTCTGATTA
TGTGGTAAAGATTGTCAAAGCCAACAAGTTAGACCACATGGTAACCACCATCAAGGGGAAGGTGGAGGAGGTAGAGCTGC
TGGTAGAGAAGGTGGAAGTCATCATTAGCAAGTGGATGGGCTACTGCCTTTTCTACTTGTCCATGCTCAACACTGTGCTG
TAGGCCAACGACTAATGACTGGTACCTGATGGCCTCATCTTTCCAGACCAAGTCACTTTGTATGTGGTGTCCATTAAGGA
CCAACAGTACAAAGCCTACAAGATCTGCTTATAAAAGAATATGTACTGCTTTGACATTCCTAAATCAAAGATGTGGCCTT
CAAGGAGCCCCTAGTGGAAATGGTGGACCTGAATCATCTGGTCACCAACGCCTACCTCATAAAAGAGGTTGGACATCTAC
ACTATCAAGGTGAAAGACCTGACCTTGACTTCTTCCTTCTGCCTGCAAGTAAAGGAAAATCACTATATGCATACCCTACT
TCAACAT

Alignment

ORF - retro_ogar_2471 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.85 %
• Parental protein coverage: 76.2 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAAAEPANCIMEVSCGQAESSEKPNAEDMTSKDYYFDSYAHFGIHEEMLKDEVRTLTYRNSMFHNRHLFK
          M.A.E..N..MEVSCGQAES.EK.NAED..S.D.YFD.YAHF..HEEMLKDEV.TL.Y.NS.FHN.HLFK
Retrocopy MGAVELLN*FMEVSCGQAESREKSNAEDIISRD*YFDFYAHFAQHEEMLKDEVCTLRYHNSVFHNWHLFK

Parental  DKVVLDVGSGTGILCMFAAKAGARKVIGIECSSISDYAVKIVKANKLDHVVTIIKGKVEEVELPVEKVDI
          DKVVLD.GSGT.I.CMF.AK..A.KV.G...SSISDY.VKIVKANKLDH.VT.IKGKVEEVEL.VEKV..
Retrocopy DKVVLDMGSGTKIFCMFTAKTKAHKVTGTQYSSISDYVVKIVKANKLDHMVTTIKGKVEEVELLVEKVEV

Parental  IISEWMGYCLFYESMLNTVLYARDKWLAPDGLIFPDRATLYVTAIEDRQYKDYKIHWWENVYGFDM-SCI
          IIS.WMGYCLFY.SMLNTVL.A.D..L.PDGLIFPD..TLYV..I.D.QYK.YKI....N.Y.FD..S.I
Retrocopy IISKWMGYCLFYLSMLNTVL*AND**LVPDGLIFPDQVTLYVVSIKDQQYKAYKICL*KNMYCFDI<S*I

Parental  KDVAIKEPLVDVVDPKQLVTNACLIKEV-DIYTVKVEDLTFTSPFCLQVKRNDYVHALVAY
          KDVA.KEPLV..VD...LVTNA.LIKEV.DIYT.KV.DLT.TS.FCLQVK.N.Y.H.L...
Retrocopy KDVAFKEPLVEMVDLNHLVTNAYLIKEV>DIYTIKVKDLTLTSSFCLQVKENHYMHTLLQH

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_2471 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000003670	3 retrocopies	retro_cjac_1800, retro_cjac_1979, retro_cjac_764,
Danio rerio	ENSDARG00000010246	1 retrocopy	retro_drer_7,
Felis catus	ENSFCAG00000006081	1 retrocopy	retro_fcat_1762,
Homo sapiens	ENSG00000126457	1 retrocopy	retro_hsap_3406,
Gasterosteus aculeatus	ENSGACG00000004897	1 retrocopy	retro_gacu_2,
Gorilla gorilla	ENSGGOG00000000503	1 retrocopy	retro_ggor_2305,
Macaca mulatta	ENSMMUG00000003029	1 retrocopy	retro_mmul_2121,
Otolemur garnettii	ENSOGAG00000011938	2 retrocopies	retro_ogar_2471 , retro_ogar_2929,
Rattus norvegicus	ENSRNOG00000026109	2 retrocopies	retro_rnor_1077, retro_rnor_2668,