RetrogeneDB ID: retro_ogar_3277

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873763.1:1029406..1029955(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CAPG
• Ensembl ID: ENSOGAG00000001084
• Aliases: None
• Description: capping protein (actin filament), gelsolin-like [Source:HGNC Symbol;Acc:1474]

Sequence

>retro_ogar_3277
GGGAACTGCTTCACCCTGGACCTGGGCCAGAACATCTTCCCCTGGCATGGTGTAAAGCTCAATATCCTGAAACACAGGGA
GGCAAGGGACCTGGTGCTGGCCACCTGGGACAGTGAGCCACAGGACAAAGCCCAGGTGGAGATTGTCACTGATGGGGAGG
AGCCCGCTGAAATGATCCAGGTCCTAGGCCCCAAGCCTGCTCTGAAGGAGGGCAATCCTGAGGAAGACCTCACAGCTGAC
CAGATAAATACCCAGGCTTCAGCTCTGTATAAGGTCTCTGATGCCACCAGAGAGACGAACCTCACCAAGGTGGCCAACTC
CAGCCCCTTTGCCCTCGAGCTGTTGGTACCTAATGGCCATTTCCTGCTACTTAATGGGCTCTGTGGCAAGATCTACATCT
GGAAGGGGTGAAAAGCTAACAAGAAGGAGCAGCAGGCAGCCCTCCAAATGGCCAAGGGCTTCATTTCCTGCTTGTAGTAT
GCCCCAAACAATCAGGTAGAGATTCTGCCCCAGGACCATGAGAGTCCTATTTTCAAGCAATTCTTCAAA

Alignment

ORF - retro_ogar_3277 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.5 %
• Parental protein coverage: 52.59 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GDCFILDLGQNIFTWCGGKSNILERNKARDLALAIRDSERQGKAQVEIVTDGEEPTEMIQVLGPKPALKE
          G.CF.LDLGQNIF.W.G.K.NIL....ARDL.LA..DSE.Q.KAQVEIVTDGEEP.EMIQVLGPKPALKE
Retrocopy GNCFTLDLGQNIFPWHGVKLNILKHREARDLVLATWDSEPQDKAQVEIVTDGEEPAEMIQVLGPKPALKE

Parental  GNPEEDLRADQTNAQAAALYKVSDATGQMNLTKVADSSPFALDLLIPDDCFVLDNGLCGKIYIWKGRKAN
          GNPEEDL.ADQ.N.QA.ALYKVSDAT...NLTKVA.SSPFAL.LL.P...F.L.NGLCGKIYIWKG.KAN
Retrocopy GNPEEDLTADQINTQASALYKVSDATRETNLTKVANSSPFALELLVPNGHFLLLNGLCGKIYIWKG*KAN

Parental  EKERQAALQVAEGFISRMQYTPNTQVEILPQGRESPIFKQFFK
          .KE.QAALQ.A.GFIS...Y.PN.QVEILPQ..ESPIFKQFFK
Retrocopy KKEQQAALQMAKGFISCL*YAPNNQVEILPQDHESPIFKQFFK

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_3277 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000019705	2 retrocopies	retro_cjac_3816, retro_cjac_459,
Macropus eugenii	ENSMEUG00000013559	1 retrocopy	retro_meug_1063,
Mus musculus	ENSMUSG00000056737	1 retrocopy	retro_mmus_3506,
Otolemur garnettii	ENSOGAG00000001084	1 retrocopy	retro_ogar_3277 ,
Rattus norvegicus	ENSRNOG00000013668	1 retrocopy	retro_rnor_840,