RetrogeneDB ID: retro_ogar_1897

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873572.1:9119704..9120558(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PRKAR1B
• Ensembl ID: ENSOGAG00000006668
• Aliases: None
• Description: protein kinase, cAMP-dependent, regulatory, type I, beta [Source:HGNC Symbol;Acc:9390]

Sequence

>retro_ogar_1897
TGTGAGCTCTATGTTCAGAAGCACTGCATCCAGCAGGTCCTCAAAAACTGTGTGGTGCACCCCTGCATCTACAAGCTGGA
CCACCCCCAGGAAGTTCCTCCAGGAGCTCTTTGAGAAGCTGGAGAAGGAAGAAAACAGACAGAGTTTGGCTCAGCAGAAG
AGAAACTCGCAGTTGGACTCCCTCGATGAGGAAGTTTCTCCTGCCCCTCCCAACCCTATGGTGAAGGCCCCCATTGGTGC
AAGCGTGTGAGTGCCGGGGTGTAAACAGAAAAGGATGCTGTCTCCTGGGTCAGAAAGGTGGTTCCCAAGGACTATAAGAC
CATGCAGCACTGGCCAAAGCCATCTCTAAGAATGTACTCTTTTCTCATCTTGATGACAATGAGAGAAGTGACATATTCAA
TGCCATGTTCCTTATCACTCACATCTCTGGGGAGACAGTTATACAGCAAGGGAAGGAAGGAGATAATTTCTATGTAATTG
ACCAAAGAGAAGTGGACGTGTATGTGAATGGAGAGTGGGTGACCAGCATCAGTGAGGGAGGCAGCTTTGGGGAGCTGGCA
CTCATTTATGGCACCCCCAGGGCCTCAACGGTAAAAGCCAAGATGGACCTCAAGCTCTGGGGCATTGACTGGGACAGCTA
CCAGCGCATCCTCATGGGCAGCACGCGGAGAAAACGCAAGGTGTACAAGGACTTCCTGAGCAAGGTGTCGATCCTAGAGG
CGCTGGAGAAGTGGGAGCGCCTGACTGTGGCTAATGCACTAGAGCCCGTTGAGTTTGAAGATGGAGAGAAAATTGTTGTC
CGGGGGGAGCCAGGAGACGACGACTTTATCATCACTGAGGGCACCGCGTCAGTC

Alignment

ORF - retro_ogar_1897 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.86 %
• Parental protein coverage: 74.8 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  CELYVQKHNIQQVLKDCVVHLCVCKPDNPM-KFLREHFERLEKEENRQISVQQKSISQSDSHDEEVSPA-
          CELYVQKH.IQQVLK.CVVH.C..K.D.P..KFL.E.FE.LEKEENRQ...QQK..SQ.DS.DEEVSPA.
Retrocopy CELYVQKHCIQQVLKNCVVHPCIYKLDHPQ>KFLQELFEKLEKEENRQSLAQQKRNSQLDSLDEEVSPA<

Parental  PPNPVVKARRRRGGVSAEVYTEEDAVSYVRKVIPKDYKTM-TALAKAISKNVLFSHLDDNERSDIFDAMF
          P..P..........VSA.V.TE.DAVS.VRKV.PKDYKTM..ALAKAISKNVLFSHLDDNERSDIF.AMF
Retrocopy PSQPYGEGPHWCKRVSAGV*TEKDAVSWVRKVVPKDYKTM<AALAKAISKNVLFSHLDDNERSDIFNAMF

Parental  PVTHIAGETVIQQGNEGDNFYVIDQGEVDVYVNGEWVTSISEGGSFGELALIYGTPRAATVKAKTDLKLW
          ..THI.GETVIQQG.EGDNFYVIDQ.EVDVYVNGEWVTSISEGGSFGELALIYGTPRA.TVKAK.DLKLW
Retrocopy LITHISGETVIQQGKEGDNFYVIDQREVDVYVNGEWVTSISEGGSFGELALIYGTPRASTVKAKMDLKLW

Parental  GIDRDSYRRILMGSTLRKRKMYEEFLSKVSILESLEKWERLTVADALEPVQFEDGEKIVVQGEPGDDFFI
          GID.DSY.RILMGST.RKRK.Y..FLSKVSILE.LEKWERLTVA.ALEPV.FEDGEKIVV.GEPGDD.FI
Retrocopy GIDWDSYQRILMGSTRRKRKVYKDFLSKVSILEALEKWERLTVANALEPVEFEDGEKIVVRGEPGDDDFI

Parental  ITEGTASV
          ITEGTASV
Retrocopy ITEGTASV

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_1897 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000006668	1 retrocopy	retro_ogar_1897 ,
Otolemur garnettii	ENSOGAG00000006822	1 retrocopy	retro_ogar_2423,