RetrogeneDB ID: retro_ogar_2061

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873587.1:1451831..1452373(+)
• Located in intron of: ENSOGAG00000001067

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000005330
• Aliases: None
• Description: None

Sequence

>retro_ogar_2061
ATGTCATCTGAAATGCTGCCAGCATTTATCGAGTCTTCTAATGTTGAAAAAAAACAAGACCTTAAGTGAAGATCAAGAGC
AGAGCCAGAAGCCAAGATTAGGTGAAGGGTTCGAACCAATATCTAAATGGCAAATGAAAAAACTTATAAAACAGAAACAA
TGGGAAGAACAATGAGAACTCCAAAAACAAAAGCAAAAGGAAAAATGCAAGAGAAAGAAATTAGAGTGACAATGTCAACT
GGAATCAAAATCAGATGAAAATGACAGAAAACGTATTTGAAGACATGCTGTTCACAGCACCCTCCGCCTTATCATTGACT
GTAGCTTTGATGACTTGATAGTTTTAAAGGACATTAAGAAACTTCTTAAGCAGATTCAGTGATCTTATGCAGAAAACCGC
TGAGCACTGCACTCTGTGCAGTTTTACCTGAGAAGCCATGGAGGCCAGCAGAAAAAAAAACATGGATGAAAATGACAAAG
GATAGGTCAACTGGAGGGATGTACACATCAAATCAGAGCACTATAGTGAACTCGTGAAAAAG

Alignment

ORF - retro_ogar_2061 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.47 %
• Parental protein coverage: 53.1 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSSEMLPAFIQSSNVEKRQDL-SEDQEQSQKPRLGEGCEPISKRQMKKLVKQKQWEEQRELRKQKRKEKR
          MSSEMLPAFI.SSNV...QDL.SEDQEQSQKPRLGEG.EPISK.QMKKL.KQKQWEEQ.EL.........
Retrocopy MSSEMLPAFIESSNVXXXQDL>SEDQEQSQKPRLGEGFEPISKWQMKKLIKQKQWEEQ*ELXXXXXXXXX

Parental  KRKKLERQCQLESKSDENDRKRIRRQAVHSTLRLIIDCSFDDLMVLKDIKKLHKQIQRCYAENRRALHPV
          ....LE.QCQLESKSDENDRKRI.R.AVHSTLRLIIDCSFDDL.VLKDIKKL.KQIQ..YAENR.ALH.V
Retrocopy XXXXLE*QCQLESKSDENDRKRI*RHAVHSTLRLIIDCSFDDLIVLKDIKKLLKQIQ*SYAENR*ALHSV

Parental  QFYLTSHGGQ-LKKNMDENDKGWVNWKDIHIKSEHYSELMKK
          QFYL.SHGGQ.....MDENDKG.VNW.D.HIKSEHYSEL.KK
Retrocopy QFYLRSHGGQ>XXXXMDENDKG*VNWRDVHIKSEHYSELVKK

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_2061 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
Ailuropoda melanoleuca	ENSAMEG00000001076	1 retrocopy	retro_amel_1868,
Macaca mulatta	ENSMMUG00000009090	1 retrocopy	retro_mmul_2024,
Mus musculus	ENSMUSG00000004127	3 retrocopies	retro_mmus_3007, retro_mmus_3008, retro_mmus_3368,
Oryctolagus cuniculus	ENSOCUG00000015213	1 retrocopy	retro_ocun_1482,
Otolemur garnettii	ENSOGAG00000005330	2 retrocopies	retro_ogar_2061 , retro_ogar_3335,
Ictidomys tridecemlineatus	ENSSTOG00000005064	1 retrocopy	retro_itri_1131,