RetrogeneDB ID: retro_ogar_392

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873520.1:43322688..43323488(-)
• Located in intron of: ENSOGAG00000027655

Retrocopy information

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

Parental gene information

• Parental gene symbol: CERS5
• Ensembl ID: ENSOGAG00000004668
• Aliases: None
• Description: ceramide synthase 5 [Source:HGNC Symbol;Acc:23749]

Sequence

>retro_ogar_392
CAGAACGTGAGCTGGGCGGATCTAGAAGGGCCGGGGGATGACTGCGGCGACCCACGGGCCGAACACGTCTTCTCGAGGTT
CCCCCTGGCGGTGGGCATCTTCTTCATGAGGCTGCTCTTGGAGTGATTTATTGCCAAACCCTGTGTACTCCACGTTGGCA
TCTAGGACAGTGGTCCTTATCAGGCCCAACCCAATGCCATTCTTGAAAAGGTGTTCACATCTATTACCAAGTATTCTGAT
AAGGAAAGACTGGAGGGCCTGTCAAAGCAACTGGACTGGGATATCCAAAAAATCCAGTGCTGGTTTCGCCATGGGAGGAA
TCAGACAAGCCCCCAATGCTCTCTAAATTCTGTGAAAGCATGTGGAGATTCACTTTTTATTTATGCATATTCTGCTATGG
AATTAGATTTCTCTGGTTGTCACCTTGGTTCTGGGACATCTGGCCGTGCTGGCATGGCTATACATTTCAGCCTCTCTCAA
GTGGACTTTATTGCTATTGTATCATGGATTGGCCTTCTAGTGATCTCTTATGTTTTCTCAGTTTACAGACATTAAAAGAA
AGGACTTCCTGATCATGTTCGTGCATTACTTGGTCACCATTGCACTTATCACCCTCCCCTACATCACCAACATGGTTTGG
GTGGGAACTTTGATCATGTGTCTACGTGATGCCTCAAGACTTCTTGCTGGAGGCAGCCAAGCTGGCCAATTATGCCAAGT
ATCAGTGGCTCTGCGACGTGCTTTTCATGATCTTCAGTGCTGTTTTTATGGTTATCGGTCTAGGAATCTATCCATTCTGG

Alignment

ORF - retro_ogar_392 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.19 %
• Parental protein coverage: 70.08 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QNVSWADLEGPGDGYGYPRAEHVFSVFPLAAGIFFVRLLFERFIAKPCALHVGIEDSGPYQAQPNAILEK
          QNVSWADLEGPGD..G.PRAEHVFS.FPLA.GIFF.RLL.E.FIAKPC.LHVGI.DSGPYQAQPNAILEK
Retrocopy QNVSWADLEGPGDDCGDPRAEHVFSRFPLAVGIFFMRLLLE*FIAKPCVLHVGI*DSGPYQAQPNAILEK

Parental  VFVSITKYPDKKRLEGLSKQLDWDVRKIQCWFRHRRNQ-DKPPTLTKFCESMWRFSFYLCIFCYGIRFLW
          VF.SITKY.DK.RLEGLSKQLDWD..KIQCWFRH.RNQ.DKPP.L.KFCESMWRF.FYLCIFCYGIRFLW
Retrocopy VFTSITKYSDKERLEGLSKQLDWDIQKIQCWFRHGRNQ<DKPPMLSKFCESMWRFTFYLCIFCYGIRFLW

Parental  LSPWFWDIRQCWQGYPFQPLSSGLYCYYIME-LAFYWSLMFSQFTDIKRKDFLIMFVHHLVTIALITLSY
          LSPWFWDI..CW.GY.FQPLSSGLYCY.IM..LAF..SLMFSQFTDIKRKDFLIMFVH.LVTIALITL.Y
Retrocopy LSPWFWDIWPCWHGYTFQPLSSGLYCYCIMD<LAF**SLMFSQFTDIKRKDFLIMFVHYLVTIALITLPY

Parental  ITNMVRVGTLIMCLHDAS-DFLLEAAKLANYAKYQRLCDTLFVIFSAVFMITRLGIYPFW
          ITNMV.VGTLIMCL.DAS.DFLLEAAKLANYAKYQ.LCD.LF.IFSAVFM...LGIYPFW
Retrocopy ITNMVWVGTLIMCLRDAS>DFLLEAAKLANYAKYQWLCDVLFMIFSAVFMVIGLGIYPFW

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_392 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryctolagus cuniculus	ENSOCUG00000012843	1 retrocopy	retro_ocun_1643,
Otolemur garnettii	ENSOGAG00000004668	1 retrocopy	retro_ogar_392 ,
Pteropus vampyrus	ENSPVAG00000006713	1 retrocopy	retro_pvam_591,
Sus scrofa	ENSSSCG00000024932	1 retrocopy	retro_sscr_1195,