RetrogeneDB ID: retro_ogar_3245

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873753.1:333063..333646(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C6orf106
• Ensembl ID: ENSOGAG00000011264
• Aliases: None
• Description: chromosome 6 open reading frame 106 [Source:HGNC Symbol;Acc:21215]

Sequence

>retro_ogar_3245
GTGGAGGGCATGGACGTGGACCTGGACCCGGACCCAGAGCTGATGCAGAAGTTCAGCTGCCTGGGCACCACAGACAAGGA
CGTGCTCATCTCCAAGTTCCAGAGGCTGCTCGGCTTCCAGCTCAATGCTGCTGGCTGTGCCTTCTTCCTGGACATGACCC
ACTGGAGCCTGTAAGCAGCAATTGGTGCCTATTATGACTTTAAGAGCCCAAACATCAGTGTACCCTCTATGTCCTTCGTT
GAAGATGTCACCACAGGAGAAGGGGAGTCAATACCTCCTGATACTCAGTTTATAAAAGCATGGCAGGTCCAGAATTCTGG
GGCAGAAGTCTGGCCTCCTGGGGTTTGTCTTAAATATGTTGGAGGTAGACCAGTTTGGACATGTGAACATGGTGATGGTG
AGATTGCTAGAGCCCCAAGAGATTGAAGAGGTCAGCATCCAGATGTGCAGCCCCAGCAGAGCAGGAATGTATCAGGGACA
GTGGCAGCTGTGCACTGCTACAGGACTCTACCATGGAGATGTCATCTGGATGATCCTCAGTGTGGAGCTGGGTGGACTTT
TAGGCGTAATGCAGCAGCTAACA

Alignment

ORF - retro_ogar_3245 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.67 %
• Parental protein coverage: 65.75 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MEGMDVDL--DPELMQKFSCLGTTDKDVLISEFQRLLGFQLNPAGCAFFLDMTNWNLQAAIGAYYDFESP
          .EGMDVDL..DPELMQKFSCLGTTDKDVLIS.FQRLLGFQLN.AGCAFFLDMT.W.L.AAIGAYYDF.SP
Retrocopy VEGMDVDLDPDPELMQKFSCLGTTDKDVLISKFQRLLGFQLNAAGCAFFLDMTHWSL*AAIGAYYDFKSP

Parental  NISVPSMSFVEDVTIGEGESIPPDTQFIKTWRIQNSGAEAWPPGVCLKYVGG-DQFGHVNMVMVRSLEPQ
          NISVPSMSFVEDVT.GEGESIPPDTQFIK.W..QNSGAE.WPPGVCLKYVGG.DQFGHVNMVMVR.LEPQ
Retrocopy NISVPSMSFVEDVTTGEGESIPPDTQFIKAWQVQNSGAEVWPPGVCLKYVGG>DQFGHVNMVMVRLLEPQ

Parental  EIADVSVQMCSPSRAGMYQGQWRMCTATGLYYGDVIWVILSVEVGGLLGVTQQLS
          EI..VS.QMCSPSRAGMYQGQW..CTATGLY.GDVIW.ILSVE.GGLLGV.QQL.
Retrocopy EIEEVSIQMCSPSRAGMYQGQWQLCTATGLYHGDVIWMILSVELGGLLGVMQQLT

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_3245 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 11 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000034493	1 retrocopy	retro_btau_1343,
Callithrix jacchus	ENSCJAG00000015304	1 retrocopy	retro_cjac_2788,
Homo sapiens	ENSG00000196821	1 retrocopy	retro_hsap_2137,
Gorilla gorilla	ENSGGOG00000000388	1 retrocopy	retro_ggor_1653,
Microcebus murinus	ENSMICG00000013442	1 retrocopy	retro_mmur_1615,
Macaca mulatta	ENSMMUG00000022824	1 retrocopy	retro_mmul_2155,
Nomascus leucogenys	ENSNLEG00000008387	2 retrocopies	retro_nleu_1933, retro_nleu_2739,
Otolemur garnettii	ENSOGAG00000011264	1 retrocopy	retro_ogar_3245 ,
Ochotona princeps	ENSOPRG00000009350	1 retrocopy	retro_opri_559,
Pongo abelii	ENSPPYG00000016519	2 retrocopies	retro_pabe_1265, retro_pabe_1928,
Pan troglodytes	ENSPTRG00000018068	1 retrocopy	retro_ptro_1564,