RetrogeneDB ID: retro_ogar_1784

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873565.1:13914477..13915742(+)
• Located in intron of: ENSOGAG00000030467

Retrocopy information

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

Parental gene information

• Parental gene symbol: B5SNK0_OTOGA
• Ensembl ID: ENSOGAG00000010206
• Aliases: None
• Description: Microfibrillar-associated protein 1 (Predicted) [Source:UniProtKB/TrEMBL;Acc:B5SNK0]

Sequence

>retro_ogar_1784
CCCAACTCACTCATGAAGCAACTGCCCATTCAGTTGAGGGCTGGGGCTGTCCTGGTTAGCAATGAGAAAGGTGAGATTTC
AATGGAGAAAGTGAAGGTAAAACGTTATGTATCCAGAAAGAGGCCAGACTATGCCCCTATGGAGTCCTCAGATGAGGAGG
ATGAAGAATTTTCGTTCATTAAGAAAGCTAAAGAACAAGAAGCAGAGCCTGAGGAACAGGAGGAAGATTCATCTAGTGAC
CCTTGGCTGTGGTGCTTACAGAACCGTATTAGTGAAGATGTGGAAGAGAGATTGGCTGAACTTCAGAAAACAGTGGAACC
TGAAGTAGTAGTAGAAAGTGACTCAGAAGTAGAAGGAGCTGCTTGGTGCATGGAATGAGAAGATAGCAATGAAGGAGAAG
AAGAAGAAATTGATGATGAGGAAACAGAGTGGTCCTGTGGCATGATGCGTCAGCGAGCACAGGAGAGAAAAAATGAAGAG
ATGGAAGTCATGGAAGTAGACGATGAAGGACGTTCTGGGGAAGAGTCAGGTTCAGAATCTGAGTATGAAGAGTACACAGA
CAGTGAAGATGGGATGGAGTCTCACTTTAAGCCAGTCTTCATTCGAAAGAAGGACAAAGTGACAGTACAAGAACATGAGG
CTGAAGCACTGATACAAAAGGAGCTGGAGTAGGAAGCAAAATGCATGGCTGAAAAGAGGCGCAAGTACGCACTCAAGATT
GTAGAAGAGGAGAACAAGAAAGAGCTGGAGGAGAACAAGTGGTCCTTAGCTGCACTGGATGCACTGAATACTGACGATGA
AAATGATGAGGAGGAATATGAGGCATGGAAGTTTCAAGAGCTGAAAAGAATCTAGAGGGACCGAGAAGACAGAGAAGCGC
TTGAAAAGGAGAAAGCAGAAATTGAATGCATGAGAAACCTGACTCAGGAAGAGAGGCGAGCTGAACTTCAGGCAAATGGC
AAAGTCATCACCAAGAAAGCTGTTAAGGGCAAATACAAGTTCTTACAGAAATATTACCACCGGGGTGCCTTCTTCATGGG
TGAAGATGAAGCAGTATACAAGAGAGATTTCAGTGCCCCCACCTTGGAGGATCATTTCAACAAAACTATTCTTCCTAAAG
TCATGCAGGTCAAGAACTTTGGCACTCTGGTCATACCAAATACACTCACCTTGTGGATCAAGACACCACCTCCTTTGACT
CAGCATGGGGACAAGAGAGTACCCAGAACAAAGTTCTTTAAACAAAAGGCAGCTGGGGTATGAGA

Alignment

ORF - retro_ogar_1784 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.11 %
• Parental protein coverage: 96.13 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PSSLMKQPPIQSTAGAVPVRNEKGEISMEKVKVKRYVSGKRPDYAPMESSDEEDEEFQFIKKAKEQEAEP
          P.SLMKQ.PIQ..AGAV.V.NEKGEISMEKVKVKRYVS.KRPDYAPMESSDEEDEEF.FIKKAKEQEAEP
Retrocopy PNSLMKQLPIQLRAGAVLVSNEKGEISMEKVKVKRYVSRKRPDYAPMESSDEEDEEFSFIKKAKEQEAEP

Parental  EEQEEDSSSDPRLRRLQNRISEDVEERLARHRKIVEPEVVGESDSEVEGDAWRMEREDSSEEEEEEIDDE
          EEQEEDSSSDP.L..LQNRISEDVEERLA...K.VEPEVV.ESDSEVEG.AW.ME.EDS.E.EEEEIDDE
Retrocopy EEQEEDSSSDPWLWCLQNRISEDVEERLAELQKTVEPEVVVESDSEVEGAAWCME*EDSNEGEEEEIDDE

Parental  EIERRRGMMRQRAQERKNEEMEVMEVEDEGRSGEESESESEYEEYTDSEDEMEPRLKPVFIRKKDRVTVQ
          E.E...GMMRQRAQERKNEEMEVMEV.DEGRSGEES.SESEYEEYTDSED.ME...KPVFIRKKD.VTVQ
Retrocopy ETEWSCGMMRQRAQERKNEEMEVMEVDDEGRSGEESGSESEYEEYTDSEDGMESHFKPVFIRKKDKVTVQ

Parental  EREAEALKQKELEQEAKRMAEERRKYTLKIVEEETKKELEENKRSLAALDALNTDDENDEEEYEAWKVRE
          E.EAEAL.QKELE.EAK.MAE.RRKY.LKIVEEE.KKELEENK.SLAALDALNTDDENDEEEYEAWK..E
Retrocopy EHEAEALIQKELE*EAKCMAEKRRKYALKIVEEENKKELEENKWSLAALDALNTDDENDEEEYEAWKFQE

Parental  LKRIKRDREDREALEKEKAEIERMRNLTEEERRAELRANGKVITNKAVKGKYKFLQKYYHRGAFFMDEDE
          LKRI.RDREDREALEKEKAEIE.MRNLT.EERRAEL.ANGKVIT.KAVKGKYKFLQKYYHRGAFFM.EDE
Retrocopy LKRI*RDREDREALEKEKAEIECMRNLTQEERRAELQANGKVITKKAVKGKYKFLQKYYHRGAFFMGEDE

Parental  EVYKRDFSAPTLEDHFNKTILPKVMQVKNFG-RSGRTKYTHLVDQDTTSFDSAWGQESAQNTKFFKQKAA
          .VYKRDFSAPTLEDHFNKTILPKVMQVKNFG..SG.TKYTHLVDQDTTSFDSAWGQES.QN.........
Retrocopy AVYKRDFSAPTLEDHFNKTILPKVMQVKNFG<HSGHTKYTHLVDQDTTSFDSAWGQESTQNKVL*TKGSW

Parental  GVR
          G.R
Retrocopy GMR

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_1784 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 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000013870	1 retrocopy	retro_dord_22,
Myotis lucifugus	ENSMLUG00000013000	2 retrocopies	retro_mluc_1384, retro_mluc_2298,
Mus musculus	ENSMUSG00000048222	2 retrocopies	retro_mmus_1147, retro_mmus_2346,
Mus musculus	ENSMUSG00000068479	2 retrocopies	retro_mmus_2386, retro_mmus_2638,
Otolemur garnettii	ENSOGAG00000010206	1 retrocopy	retro_ogar_1784 ,
Rattus norvegicus	ENSRNOG00000015984	1 retrocopy	retro_rnor_83,
Sarcophilus harrisii	ENSSHAG00000014628	1 retrocopy	retro_shar_107,
Ictidomys tridecemlineatus	ENSSTOG00000006967	2 retrocopies	retro_itri_1105, retro_itri_1494,
Tupaia belangeri	ENSTBEG00000005050	2 retrocopies	retro_tbel_3001, retro_tbel_3246,