RetrogeneDB ID: retro_ogar_2301

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873610.1:6498525..6499087(+)
• Located in intron of: ENSOGAG00000028005

Retrocopy information

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

Parental gene information

• Parental gene symbol: SPR
• Ensembl ID: ENSOGAG00000012959
• Aliases: None
• Description: sepiapterin reductase (7,8-dihydrobiopterin:NADP+ oxidoreductase) [Source:HGNC Symbol;Acc:11257]

Sequence

>retro_ogar_2301
GGCAGACCTGAGTTGCCTGTAAATAGTGAGGGTGCCTGCCACCTGAGCACTGAGGCCAGCTTGCAGCAGCTGCTGGGAGC
CCTTTACAAGCAACCTAGGCTCAAGAAGCTATAGCGACTGCTGCTCATCAACAATGCAGGCACTCTTGTGGATGTGTCCA
AAGGCTTTGTGGACCTGTGTGACCCAGCTGAAGTGAACAACTACTGGGTTCTGAACTTGACCTCTATGCTCTGCCTAACC
TCTGGCATCCTGAAGGCCTTCTGGGACTACCCTGGCCTCAGCAGGACAATGGTTGACATCTCGTCCCTCTGTACCCTGCA
GCCCTTTAAGGGCTGGGCATTGTACTCTTCAAGAAAGGCTGTGCCTAATATGATATTTCAGGTTCTGACTGCAGAGGAAC
CTGGTGTATGGGTGCTGAGCTATGCCCCAGGTCTCCTGGACACAGGTATGCAGCAGTTGGCCCAGGAGACCTCTGCAAAC
CCAGACTTGTGAAAAAAGGCTGCAGTAACTGAAGACAAGTGGGCAGCTGATGGCTTGCAGAGTGTCAGCTCAGAAAATGC
TT

Alignment

ORF - retro_ogar_2301 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.0 %
• Parental protein coverage: 69.4 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GRPGLRVVGVSA-DLGTEAGLQQLLGALHKLSRPEGLQRLLLINNAGSLGDVSKGFVDLCDPAEVNNYWA
          GRP.L.V....A..L.TEA.LQQLLGAL.K..R...L.RLLLINNAG.L.DVSKGFVDLCDPAEVNNYW.
Retrocopy GRPELPVNSEGACHLSTEASLQQLLGALYKQPRLKKL*RLLLINNAGTLVDVSKGFVDLCDPAEVNNYWV

Parental  LNLTSTLCLTSGILKAFQDSPDLSRTVVNISSLCALQPFKGWALYCAGKAARNMMFQVLAAEEPGVRVLS
          LNLTS.LCLTSGILKAF.D.P.LSRT.V.ISSLC.LQPFKGWALY...KA..NM.FQVL.AEEPGV.VLS
Retrocopy LNLTSMLCLTSGILKAFWDYPGLSRTMVDISSLCTLQPFKGWALYSSRKAVPNMIFQVLTAEEPGVWVLS

Parental  YAPGPLDTDMQQLARETSVDPDL-RKRLQKLKTSGELVDCRVSAQKLL
          YAPG.LDT.MQQLA.ETS..PDL..KRLQ.LKTSG.L..CRVSAQK.L
Retrocopy YAPGLLDTGMQQLAQETSANPDL>EKRLQ*LKTSGQLMACRVSAQKML

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_2301 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000012959	1 retrocopy	retro_ogar_2301 ,
Pelodiscus sinensis	ENSPSIG00000013998	1 retrocopy	retro_psin_10,
Pteropus vampyrus	ENSPVAG00000016383	1 retrocopy	retro_pvam_802,
Sus scrofa	ENSSSCG00000008309	1 retrocopy	retro_sscr_410,