RetrogeneDB ID: retro_ogar_848

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873529.1:17488223..17488830(+)
• Located in intron of: ENSOGAG00000032369

Retrocopy information

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

Parental gene information

• Parental gene symbol: B4USW2_OTOGA
• Ensembl ID: ENSOGAG00000015836
• Aliases: None
• Description: Crystallin, zeta-like 1 (Predicted) [Source:UniProtKB/TrEMBL;Acc:B4USW2]

Sequence

>retro_ogar_848
TTGGCTGGAATTGTGTTAGAAGTTGGAAGCAAGGTGTCATTCTTTCAACCAGAAGATGAAATAGTTGGAATTTTGCCATT
GGACTCTGAAGACTCTGGACTTTGTGAAGTTGTTAGAGTACATGAGCATTATGTGGTACATAAACCAGAAAAGGTCACTT
GGACAGAAGCAGCTGGACCCATTTGGGATGGAGTGCCAGCCTAGATAGCACTGCATTACCTTTCTCAGCTCTCTCCTGGA
AAGTCAGTGCTGGTCATGGATGGAGCAAGTGCATTTGGTACAATAGCTATCCAGTTAGCACATCATAGGGGAACCAAGGT
GATTTCAACAGCATGCAGCCTTGAAGACAAGCAGTTCTGTGAAAGACTTAGGCCTTCTATAGCCCGAGTGATTGATGTAT
CTAATGGTAAAGTCCATGTTGCTGAAAGCTGTTTGGAAGAAACAGGTGGCCTAGGAGTAGATACTGTCCTAGATGCTAGA
GTGAGATTGTATAGTAAAGATGATGCACCCAGCTGTAAAATTACGATTACTACCACATAAACATGATATTATCATACTAC
TTGGTGTTGGAGGCCATTGGGTAACAACAGAAGAAAATCTTCATTTG

Alignment

ORF - retro_ogar_848 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.16 %
• Parental protein coverage: 68.94 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IAGIVLEVGSKVSFFQPDDEVVGILPLDSEDSGLCEVVRVHEHYLVHKPEKVTWTEAAGTIRDGVRAYTA
          .AGIVLEVGSKVSFFQP.DE.VGILPLDSEDSGLCEVVRVHEHY.VHKPEKVTWTEAAG.I.DGV.A..A
Retrocopy LAGIVLEVGSKVSFFQPEDEIVGILPLDSEDSGLCEVVRVHEHYVVHKPEKVTWTEAAGPIWDGVPA*IA

Parental  LHYLSQLSPGKSVLIMDGASAFGTIAIQLAHHRGAKVISTACSLEDKQFLERLRPSIARVIDVSNGKVHV
          LHYLSQLSPGKSVL.MDGASAFGTIAIQLAHHRG.KVISTACSLEDKQF.ERLRPSIARVIDVSNGKVHV
Retrocopy LHYLSQLSPGKSVLVMDGASAFGTIAIQLAHHRGTKVISTACSLEDKQFCERLRPSIARVIDVSNGKVHV

Parental  AESCLEETGGLGVDIVLDTGVRLYSKDD-EPAAKLQLLPHKHDVITLLGVGGHWVTTEENLQL
          AESCLEETGGLGVD.VLD..VRLYSKDD..PA.KL.LLPHKHD.I.LLGVGGHWVTTEENL.L
Retrocopy AESCLEETGGLGVDTVLDARVRLYSKDD>HPAVKLRLLPHKHDIIILLGVGGHWVTTEENLHL

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_848 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000015836	1 retrocopy	retro_ogar_848 ,
Rattus norvegicus	ENSRNOG00000028014	1 retrocopy	retro_rnor_1949,