RetrogeneDB ID: retro_ogar_695

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873525.1:41878454..41879165(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000031140
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: IFRD1
• Ensembl ID: ENSOGAG00000004194
• Aliases: None
• Description: interferon-related developmental regulator 1 [Source:HGNC Symbol;Acc:5456]

Sequence

>retro_ogar_695
ACACTGGAATGTTTAGAAAATATATTCACCAAGCCCTATCTCAAAGAGAAAGACGCTAATGTTATTTGCAGCACCCCTAA
TACAGTGCTTCATATCAGCTCGCTTTTGGCATGGACGCTGTTACTGACCATATGCCCAATCAATGAAGTGAAGGAAAAGC
TTGAGATGCACTTCCATAAACTTCCAAGCCTCCCCTCTTGTGATGATGTAAACATGAGAATAGCTGCTGGTGAATCTTTG
GCACTTCTTTTTGAATTGGCCAAGGGGGTGGAGAGTGACTTTTTTTATGAAGATATGCAGTCTTTGACTAAGATGCTTAA
GGCTTTCGCTACAGAGGGAAATAAACACTGGGTCAAAGTAGACATGAGAAAGCAGCGGTCATTTTTCAGACATGTCCTGA
GGGTGGTGGAAGAATGGGATTTTCCAACAGAAACTGTTAAGTTTGGTCCCGAATGCATGTATATTGATTGCTGGGTCAAA
AAACACATCTATGACACCTTTAAGGAGATTCTTGGATCAGGTATGCGGTACCACTTGCAGTCAAATGAATTCCTTTGCAA
TGTATTTGAAATTGGACCCCCAGGTATGCTTGATGCTGCAAAGTTTAAAACAATGAAAATTTCTCATTTCGAAAGGCATT
TATAAAACTCTGCAGCCTTCAAAGCTCAAAGCAAATGTCAAGATAAGAAAGCAGATGTTGGAGAATTCTTC

Alignment

ORF - retro_ogar_695 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.48 %
• Parental protein coverage: 53.32 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TLECLENIFTKSYLKEKDASVICSTPNTVLHISSLLAWTLLLTICPINEVKKKLEMHFHKLPSLLSCDDV
          TLECLENIFTK.YLKEKDA.VICSTPNTVLHISSLLAWTLLLTICPINEVK.KLEMHFHKLPSL.SCDDV
Retrocopy TLECLENIFTKPYLKEKDANVICSTPNTVLHISSLLAWTLLLTICPINEVKEKLEMHFHKLPSLPSCDDV

Parental  NMRIAAGESLALLFELARGMESDFFYEDMESLTQMLKALATDGNKHRAKVDKRKQRSVFRDVLRAVEERD
          NMRIAAGESLALLFELA.G.ESDFFYEDM.SLT.MLKA.AT.GNKH..KVD.RKQRS.FR.VLR.VEE.D
Retrocopy NMRIAAGESLALLFELAKGVESDFFYEDMQSLTKMLKAFATEGNKHWVKVDMRKQRSFFRHVLRVVEEWD

Parental  FPTETVKFGPERMYIDCWVKKHTYDTFKEILGSGMQYHLQSNEFLRNVFELGPPVMLDAATLKTMKISRF
          FPTETVKFGPE.MYIDCWVKKH.YDTFKEILGSGM.YHLQSNEFL.NVFE.GPP.MLDAA..KTMKIS.F
Retrocopy FPTETVKFGPECMYIDCWVKKHIYDTFKEILGSGMRYHLQSNEFLCNVFEIGPPGMLDAAKFKTMKISHF

Parental  ERHLYNSAAFKARTKARSKCRDKRADVGEFF
          ERHL.NSAAFKA..K....C.DK.ADVGEFF
Retrocopy ERHL*NSAAFKAQSK----CQDKKADVGEFF

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_695 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000004194	1 retrocopy	retro_ogar_695 ,
Otolemur garnettii	ENSOGAG00000012534	1 retrocopy	retro_ogar_2236,
Tursiops truncatus	ENSTTRG00000010976	1 retrocopy	retro_ttru_1641,