RetrogeneDB ID: retro_ogar_861

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873529.1:10241010..10241396(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C1orf123
• Ensembl ID: ENSOGAG00000013324
• Aliases: None
• Description: chromosome 1 open reading frame 123 [Source:HGNC Symbol;Acc:26059]

Sequence

>retro_ogar_861
TCAATGCCAGGTTGCACCTGCCTCCGGCCGGTGAACCAAGACTTCTGGTAGTACCTGAAGATGAAATGTGGCAACTGTGG
TGAGGTTTCAAGGAACTGGCACTACTTCTGGCTGATGGACATTGCAGCACTAAAGGAAGACGCGGCAGCTCCTCCATGGA
CCAGAAGTGCAAAGTGGCCACACAGGACAGCTCCAGAGAGAGTCTGAGCAGCACCATCAAATTTTATAGTGCTGAAGACA
GTGAAAAGTTCAAGACCATAGTAGAGTTTGAGTTCTGAAGCCTCAAACCTCCTGATTTTCAGCCCCAGGCTGGGTTTGCT
GCTAGGAGTGTGAAGTCAGGTCCCATCTTCAGTGACATTAATCTGTAGGAGGAGGACTGGACAAAA

Alignment

ORF - retro_ogar_861 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.31 %
• Parental protein coverage: 81.13 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TLENVTNLRPMGEDFRWYLKMKCGNCGEISEKWQYIRLMDSVAVK-GGRGSASMVQKCKLCARENSIDIL
          .....T.LRP...DF..YLKMKCGNCGE.S..W.Y..LMD..A.K.G.RGS.SM.QKCK......S...L
Retrocopy SMPGCTCLRPVNQDFW*YLKMKCGNCGEVSRNWHYFWLMDIAALK<GRRGSSSMDQKCKVATQDSSRESL

Parental  SSTIKPYNAEDNEKFKTIVEFECRGLEPVDFQPQAGFAAEGVESGTVFSDINLQEKDWTE
          SSTIK.Y.AED.EKFKTIVEFE...L.P.DFQPQAGFAA..V.SG..FSDINL.E.DWT.
Retrocopy SSTIKFYSAEDSEKFKTIVEFEF*SLKPPDFQPQAGFAARSVKSGPIFSDINL*EEDWTK

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_861 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 14 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004526	3 retrocopies	retro_cjac_2948, retro_cjac_3149, retro_cjac_3186,
Cavia porcellus	ENSCPOG00000011509	1 retrocopy	retro_cpor_1142,
Homo sapiens	ENSG00000162384	1 retrocopy	retro_hsap_192,
Gorilla gorilla	ENSGGOG00000004027	1 retrocopy	retro_ggor_271,
Microcebus murinus	ENSMICG00000006397	1 retrocopy	retro_mmur_1113,
Myotis lucifugus	ENSMLUG00000002439	1 retrocopy	retro_mluc_101,
Mus musculus	ENSMUSG00000028608	1 retrocopy	retro_mmus_975,
Nomascus leucogenys	ENSNLEG00000017988	1 retrocopy	retro_nleu_1001,
Oryctolagus cuniculus	ENSOCUG00000029317	1 retrocopy	retro_ocun_770,
Otolemur garnettii	ENSOGAG00000013324	1 retrocopy	retro_ogar_861 ,
Ochotona princeps	ENSOPRG00000009003	2 retrocopies	retro_opri_351, retro_opri_711,
Pongo abelii	ENSPPYG00000001336	1 retrocopy	retro_pabe_443,
Pan troglodytes	ENSPTRG00000000752	1 retrocopy	retro_ptro_99,
Rattus norvegicus	ENSRNOG00000012724	3 retrocopies	retro_rnor_1999, retro_rnor_2403, retro_rnor_2705,