RetrogeneDB ID: retro_ogar_2831

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873669.1:2752969..2753800(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SEPT11
• Ensembl ID: ENSOGAG00000005210
• Aliases: None
• Description: septin 11 [Source:HGNC Symbol;Acc:25589]

Sequence

>retro_ogar_2831
ACAAGGGTCCATGCCTGTCTCTACTTCATCACCCCAACTGGGCATTCACTGAAGTCCCTGGACCTGGCCACCATGAAGAA
GCTGGACAGTAAAGTGAACATCATTCCAATAATTGCAAATGCTGACACCATTGCCAAGAATGAACTGCACAAATTTAAGA
GTAAGATCCTGAGTGAACTAGTCAGCAATGGGGTCCCAAGAGATCAGTTCCCCACTGATAAAGAAACTGTGGAAGAGCTT
AATGCAACAATCAGCGTCCATCTCCCGCTTGCAGTGGTTGACAGCACTGAGGAGGTGAAGATTGGCAACAAGATGGCAAA
GGCCAGGCAGTACCCCTGGGGCGCGGTACAGGTTGAGAATGAAAACCATGCGATTTCGGGAAACTTCGGGAGATGCTGAT
CCGCGTGAACAGGGAGGATTTGCGAGAACAGACTCACACCTGCCATGATGGACTGTACGGACGTTGTAAGCTCGAGGAGA
TGGGGTTCAAGGATACTGACCCCGACCCCGGTCTTCAGGAGACATAGGAGGCGAAACGGAACGAGTTCCTAGGAGAGCTG
CAGAAGGAAGAAGAGGAAATGAGAGGAAATGGTTCTGAGAGTAAAGCGGAAAGAAGCTGAACCGGAAGGGGCAGAGGAGG
AACTTCACGGGAAGTCGGACCTCCTCAGCGGACACTCCAAGACGAGGAGAAGAGAGTGGAGGACAAGAAGGAGGAGCTCG
GGGAGGAGTGACCGACTTCCAGAAGAAGAAGGCAGCGCCCGGTTGCTACAGTCCCAGGCCCAGCAATCTCGGGCGCAGCA
AACCAAGAAAGACAAGGATAAGGAAAATGCA

Alignment

ORF - retro_ogar_2831 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.79 %
• Parental protein coverage: 65.58 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  TRVHACLYFIAPTGHSLKSLDLVTMKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQF
          TRVHACLYFI.PTGHSLKSLDL.TMKKLDSKVNIIPIIA.ADTIAKNELHKFKSKI.SELVSNGV...QF
Retrocopy TRVHACLYFITPTGHSLKSLDLATMKKLDSKVNIIPIIANADTIAKNELHKFKSKILSELVSNGVPRDQF

Parental  PTDEETVAEINATMSVHLPFAVVGSTEEVKIGNKMAKARQYPWGVVQVENENH-CDFVKLREMLIRVNME
          PTD.ETV.E.NAT.SVHLP.AVV.STEEVKIGNKMAKARQYPWG.VQVENENH.CDF.KLREMLIRVN.E
Retrocopy PTDKETVEELNATISVHLPLAVVDSTEEVKIGNKMAKARQYPWGAVQVENENH<CDFGKLREMLIRVNRE

Parental  DLREQTHTRHYELYRRCKLEEMGFKDTDPDSKPFSLQETYEAKRNEFLGELQKKEEEMR-QMFVMRVKEK
          DLREQTHT.H..LY.RCKLEEMGFKDTDPD.....LQET.EAKRNEFLGELQK.EEE......V.RVK.K
Retrocopy DLREQTHTCHDGLYGRCKLEEMGFKDTDPDP---GLQET*EAKRNEFLGELQK-EEEEM>EEMVLRVKRK

Parental  EAELKEAEKELHEKFDLL-KRTHQEEKKKVEDKKKELEEE-VNNFQKKKAA-AQLLQSQAQQSGAQQTKK
          EAE...AE.ELH.K.DLL..RT.Q.E.K.VEDKK.EL.EE.V..FQKKKAA.A.LLQSQAQQS.AQQTKK
Retrocopy EAEPEGAEEELHGKSDLL<QRTLQDEEKRVEDKKEELGEE<VTDFQKKKAA<ARLLQSQAQQSRAQQTKK

Parental  DKDKKNS
          DKDK.N.
Retrocopy DKDKENA

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_2831 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003906	1 retrocopy	retro_chof_1543,
Callithrix jacchus	ENSCJAG00000014744	1 retrocopy	retro_cjac_2336,
Monodelphis domestica	ENSMODG00000011825	1 retrocopy	retro_mdom_224,
Oryctolagus cuniculus	ENSOCUG00000001289	1 retrocopy	retro_ocun_1758,
Otolemur garnettii	ENSOGAG00000004457	1 retrocopy	retro_ogar_2239,
Otolemur garnettii	ENSOGAG00000005210	1 retrocopy	retro_ogar_2831 ,
Otolemur garnettii	ENSOGAG00000006015	1 retrocopy	retro_ogar_1193,
Pan troglodytes	ENSPTRG00000016192	1 retrocopy	retro_ptro_2753,