RetrogeneDB ID: retro_ogar_430

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873521.1:3547509..3548217(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000002830
• Aliases: None
• Description: None

Sequence

>retro_ogar_430
AGGCCAGTCATGTATCAGACATTTCTTGAATGTATGTTGGAAACCATCGTTCATGCCAGCAGCTGGAATAAGATTTTGGT
GCCTCTGGTTTTATTACAATGAATGCTTTTGGAGTTGATAAGACAAGGTGGGGAGACTTTGAGTGCACTGCTGCAGTTCG
GTGTGACATATTTGGAGGACCACGTGGCAGAGTACATCATTCAGCAAGGTGGCTAGGATGCCGTCTTCAACCTTCACTCA
GAGGGGAAGAGGTGCCCTGGAATCACTGCAGAAGACAGCAGTGACATTTACAGCCTGCCCAGTGACAACTCTGGACAAGT
CAGTCCTCCGGAGTCTCCTACTGTGACCACCTCCCGGCAGTCAGAGAGCTTACCTGTCTCCCTGCCAGCCAGCCAGACAG
AAAGCCTGCCAGCGTCTCTAGGTCCCAAAGCCTGGCAACAGATTACAATGGATCCTGAAGAAGTCAAAAGTTTGGATAGC
AACGGAGCTGGAGAGAAGAGTGAGAACAGCTCTTGGAATTCTGCTGTAGTGCATTAGAAAGAAGCCCCGAGCGAGCGAGC
GTGTGGAAGAGGCTGCTGTGGTCCTGCCGGCCGGGAGCTGCAGGAAGCGCTCCCTGGAGCCCCAGCGCCCTTCTGCCACA
TAGCATGGCCCGTCCCTGCTGGAGACAGGGGACCCCAGGCGAAGATGACTGCAGTTGAGAAAACCAAC

Alignment

ORF - retro_ogar_430 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.47 %
• Parental protein coverage: 62.63 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  QPVTYQTFRECMLETTVYASGWNKILVPLVLLQRMLLELTRRGQEPLSALLQFGVTYLEDYSAEYIIQQG
          .PV.YQTF.ECMLET.V.AS.WNKILVPLVLLQ.MLLEL.R.G.E.LSALLQFGVTYLED..AEYIIQQG
Retrocopy RPVMYQTFLECMLETIVHASSWNKILVPLVLLQ*MLLELIRQGGETLSALLQFGVTYLEDHVAEYIIQQG

Parental  GWGAVFNLDSEEEECPGVTAEDSNDIYILPSDNSGQVSPPESPTVTTSWQSESLPVSLSASQSWHTESLP
          G..AVFNL.SE...CPG.TAEDS.DIY.LPSDNSGQVSPPESPTVTTS.QSESLPVSL.ASQ...TESLP
Retrocopy G*DAVFNLHSEGKRCPGITAEDSSDIYSLPSDNSGQVSPPESPTVTTSRQSESLPVSLPASQ---TESLP

Parental  VSLGPESWQQIAMDPEEVKSLDSNGAGEKSENNSSNSDIVH-VEKEEVPEGVEEAAAA--AG-ELQEAFP
          .SLGP..WQQI.MDPEEVKSLDSNGAGEKSEN.S.NS..VH...K....E.VEEAA....AG.ELQEA.P
Retrocopy ASLGPKAWQQITMDPEEVKSLDSNGAGEKSENSSWNSAVVH>RKKPRASERVEEAAVVLPAG<ELQEALP

Parental  EAPAP-LLPHITA-TSLLEAGE-PHAEVIAAEKAS
          .APAP.LLPH..A..SLLE.G..P.A...A.EK..
Retrocopy GAPAP<LLPHSMA<PSLLETGD<PQAKMTAVEKTN

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_430 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000010335	1 retrocopy	retro_ecab_1010,
Otolemur garnettii	ENSOGAG00000002830	1 retrocopy	retro_ogar_430 ,
Rattus norvegicus	ENSRNOG00000012394	1 retrocopy	retro_rnor_429,