RetrogeneDB ID: retro_ogar_2275

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873608.1:250920..251307(-)
• Located in intron of: ENSOGAG00000003165

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000006102
• Aliases: None
• Description: None

Sequence

>retro_ogar_2275
ATTATCTTTGGGCACAATGACACAGACCTTTGCTGCATTGAGGCACACTGCTACACTCTCACTCAGCTGGAAAGGTGGTT
TATAGCCACAGGCCAGACTCGTGTCACTGTGGTCAGGCCACCCAGGGCAAGGCAGGGGCTGTTGCACATCATCTGGTGTG
TGGGGAGCCAGGACTCCTATAGTCAGACCCAGGGCCTTGAGATGCTGCAATGTGTCTGGAGCCAGCCCCTGACCGAGGTT
GACCTGGCCACCTCTACAAACACAGATCCCAACATTGGGCACCTGTCTCTGGCCACCAGGATAAGTGGAACTATCTCTCT
TAATATTCCTTAGGCTACCCCTTCTCAGTTGGTTGGTTGTATGGGATTCCATCTGAGTTCACTCTAT

Alignment

ORF - retro_ogar_2275 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.77 %
• Parental protein coverage: 99.23 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLTGHDDSYLRRIEVHSYTLIQLERWFTATGQTRVTVVGPPKARQWLLHMISCVGSPDSYLRARELEMLR
          ...GH.D..L..IE.H.YTL.QLERWF.ATGQTRVTVV.PP.ARQ.LLH.I.CVGS.DSY.....LEML.
Retrocopy IIFGHNDTDLCCIEAHCYTLTQLERWFIATGQTRVTVVRPPRARQGLLHIIWCVGSQDSYSQTQGLEMLQ

Parental  RVRSQPLTQVDLATSTSTEPNIGDLSLATRISATISLDVPQASPFQLIGCRGVHLSSLY
          .V.SQPLT.VDLATST.T.PNIG.LSLATRIS.TISL..P.A.P.QL.GC.G.HLSSLY
Retrocopy CVWSQPLTEVDLATSTNTDPNIGHLSLATRISGTISLNIP*ATPSQLVGCMGFHLSSLY

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_2275 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 6 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000009236	4 retrocopies	retro_dord_249, retro_dord_47, retro_dord_607, retro_dord_82,
Microcebus murinus	ENSMICG00000006451	1 retrocopy	retro_mmur_647,
Macaca mulatta	ENSMMUG00000018573	1 retrocopy	retro_mmul_84,
Mus musculus	ENSMUSG00000067750	1 retrocopy	retro_mmus_464,
Oryctolagus cuniculus	ENSOCUG00000028154	1 retrocopy	retro_ocun_735,
Otolemur garnettii	ENSOGAG00000006102	1 retrocopy	retro_ogar_2275 ,