RetrogeneDB ID: retro_ogar_2202

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873601.1:7552510..7554217(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PRPF6
• Ensembl ID: ENSOGAG00000007573
• Aliases: None
• Description: pre-mRNA processing factor 6 [Source:HGNC Symbol;Acc:15860]

Sequence

>retro_ogar_2202
CACCCACCAGTGTGGAATGCGTCAGCCCGCCTCGAAGAAGTCACTGGGAAGCTGCAAGTAGCTCGGAACCTTATCATGAA
GGGGACAGAGATGTGCCCCAAGAGTGAAGACGTGTGGTTAGAAGCAGCCAGGTTGCAGCCTGGGGACACTGACAAGGCTG
TGGTGGCCCAAGCTGTCCGGCATCTCCCACAGTCTGTTAGGATTTATATCAGAGCAGCAGAGCTGGAAACAGACATTCAA
GCAAAGAAGCGGGTTCTTTGGAAAGCTTTTGAGCATGTCCCAAACTCGGTTCGCTTGTGGAAAGCAGCCATTGAACTGGA
AGAGCCTGAAGATGCTAGATTCATGCTCAGCCGTGCTATGGAGTGCTGCCCCACCAGCGTGGAGCTCTGGCTTGCTCTGG
CAAGGCTGGAGACCTATGAAAATGCCCAAAAGGTCTTGAACAAAGCAGATGAGAACATTCCTACTGACCGGCACATCTGG
ATCACTGCTGCCAAACTGGAGGAGGCCAGTGGGAACACACAGATGGTGGAGAAGATCATTGACAGGGCTATCACTTCTCT
GCGGGCCAATGGTGTAGAGATCAACCATGAGCAGTGGATTCAGGATGCCGAGGAATGTGACAGGGCAGGGAGCGTGGCCA
CCTGCTAGGCAGTCATGCGCGCTGTGATTGGCATCGGGATTGAGGAGGAGGATCGGAAGCACACCTGGATGAAAGATGCA
GATAGTTGCGTGGCCCACAGTGCCCTGGAGTGCGCATGCGCCCTCTATGCCTACGCCCTGCAGGTGTTCCCCAGCAAGAG
GAGCGTGTGGCTACGAGCTGCATACTTTGAGAAGAACCACGGCACCAGGGAGTCCCTGGAAGCCCTCCTGCAGAGGGCTG
TGGCTCATTGCCCGAAAGCGGAGGTGCTACGGCTCATGGGAGCCAAGTCCAAGTGGCTGGCAGGGGATGTGCCCGCAGCA
AGGAGCATCTTGGCTCTGGCCTTCCAGGCTAACCCCAACAGCGAGTAGATCTGGCTGGCAGCCGTGAAGCTGGAGTCCCA
GAACAATGAGTACGAGCGGGCTCAGAGGCTGCTGGCTAAGGCACGGAGCAGTGCACCCACTGCTCGGGTGTTCATGAAGT
CTGTGAAGCTGGAGTGGGTGTTGGGCGGCACCGCAGCCGCGCAGGAGCTGTGTGAGGAGGCCTTGCGTCTGTATGAGGAC
TTCCCCAAGCTGTGGATGATGAAGGGGCAGATGGAGGAGCAGGAAGGGCAGATGGAGAAGGCACACAAGGCCTACAGCCA
GGGGTTGAAGAAGTGTCCCAACTCTACACCCCTGGGGCTTTTGCTCTCACAGCTGGAAGAGAAGATTGGGCAGCTCACCC
GGGCATGGGCTACTCTGGAGAAGTCTCATCTGAGGAACCCAAAGAACCCTGAGCTATGGCTGGAGTCTGTGTGGCTGGAG
TACTGTGCGGGGCTGAAGAACATTGCCGACACTCTCATGACCAAGGCACTGCAGGAGTGCCCCAACTCCGGTATCCTGTG
GTCTGAAGCCATTTTCCTTGAGGCAAGGCCCCAGAGGGAGACGAAGTGCGTGGATGCCCTGAATAAGCGTGAACACGATC
CCCATGTGCTCCTGGCTGTGGCCAAGCTGCTTTGGAGCGAGCGGAAGATCACCAAGGCCAGGGAGTGGTTCCACCGCACC
GTGAAGATTGAGCCAGACCTGGGGGAT

Alignment

ORF - retro_ogar_2202 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.32 %
• Parental protein coverage: 61.29 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NPPPPTISTVESSSVGMLKPSWDLRFCSTGMCLSHSEDVWLEAARLQPGDTAKAVVAQAVRHLPQSVRIY
          .PP....S.......G.L.....L....T.MC...SEDVWLEAARLQPGDT.KAVVAQAVRHLPQSVRIY
Retrocopy HPPVWNASARLEEVTGKLQVARNLIMKGTEMC-PKSEDVWLEAARLQPGDTDKAVVAQAVRHLPQSVRIY

Parental  IRAAELETDIRAKKRVLRKALEHVPNSVRLWKAAVELEEPEDARIMLSRAVECCPTSVELWLALARLETY
          IRAAELETDI.AKKRVL.KA.EHVPNSVRLWKAA.ELEEPEDAR.MLSRA.ECCPTSVELWLALARLETY
Retrocopy IRAAELETDIQAKKRVLWKAFEHVPNSVRLWKAAIELEEPEDARFMLSRAMECCPTSVELWLALARLETY

Parental  ENARKVLNKARENIPTDRHIWITAAKLEEANGNTQMVEKIIDRAITSLRANGVEINREQWIQDAEECDRA
          ENA.KVLNKA.ENIPTDRHIWITAAKLEEA.GNTQMVEKIIDRAITSLRANGVEIN.EQWIQDAEECDRA
Retrocopy ENAQKVLNKADENIPTDRHIWITAAKLEEASGNTQMVEKIIDRAITSLRANGVEINHEQWIQDAEECDRA

Parental  GSVATCQAVMRAVIGIGIEEEDRKHTWMEDADSCVAHSALECARAIYAYALQVFPSKKSVWLRAAYFEKN
          GSVATC.AVMRAVIGIGIEEEDRKHTWM.DADSCVAHSALECA.A.YAYALQVFPSK.SVWLRAAYFEKN
Retrocopy GSVATC*AVMRAVIGIGIEEEDRKHTWMKDADSCVAHSALECACALYAYALQVFPSKRSVWLRAAYFEKN

Parental  HGTRESLEALLQRAVAHCPKAEVLWLMGAKSKWLAGDVPAARSILALAFQANPNSEEIWLAAVKLESENN
          HGTRESLEALLQRAVAHCPKAEVL.LMGAKSKWLAGDVPAARSILALAFQANPNSE.IWLAAVKLES.NN
Retrocopy HGTRESLEALLQRAVAHCPKAEVLRLMGAKSKWLAGDVPAARSILALAFQANPNSE*IWLAAVKLESQNN

Parental  EYERARRLLAKARSSAPTARVFMKSVKLEWVLGSIAAAQELCEEALRPYEDFPKLWMMKGQIEEQEGQME
          EYERA.RLLAKARSSAPTARVFMKSVKLEWVLG..AAAQELCEEALR.YEDFPKLWMMKGQ.EEQEGQME
Retrocopy EYERAQRLLAKARSSAPTARVFMKSVKLEWVLGGTAAAQELCEEALRLYEDFPKLWMMKGQMEEQEGQME

Parental  KAREAYSQGLKKCPHSTPLWLLLSRLEEKIGQLTRARAILEKSRLRNPKNPELWLESVRLEYRAGLKNIA
          KA..AYSQGLKKCP.STPL.LLLS.LEEKIGQLTRA.A.LEKS.LRNPKNPEL...........GLKNIA
Retrocopy KAHKAYSQGLKKCPNSTPLGLLLSQLEEKIGQLTRAWATLEKSHLRNPKNPELXXXXXXXXXXXGLKNIA

Parental  NTLMAKALQECPNSGILWSEAIFLEARPQRKTKSVDALKKCEHDPHVLLAVAKLFWSERKITKAREWFHR
          .TLM.KALQECPNSGILWSEAIFLEARPQR.TK.VDAL.K.EHDPHVLLAVAKL.WSERKITKAREWFHR
Retrocopy DTLMTKALQECPNSGILWSEAIFLEARPQRETKCVDALNKREHDPHVLLAVAKLLWSERKITKAREWFHR

Parental  TVKIDSDLGD
          TVKI..DLGD
Retrocopy TVKIEPDLGD

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_2202 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 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000007573	1 retrocopy	retro_ogar_2202 ,