RetrogeneDB ID: retro_ogar_1088

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873535.1:4867471..4867962(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NMNAT1
• Ensembl ID: ENSOGAG00000033037
• Aliases: None
• Description: nicotinamide nucleotide adenylyltransferase 1 [Source:HGNC Symbol;Acc:17877]

Sequence

>retro_ogar_1088
ATGGAAAAATCAGAGAAAACAGAAGTGGCTCTCCTTGCTTGTTGTTCCTTTAATCCTATCACTAACATCCACCTCAAGTT
GTTTGAGTTGGCCACGGAGTACATGAATGGAACATGAAAATATAGAGTTAGCAAAGGCATGGTTTCTTCTGTTCGTGATG
CATCTATTAAGAAAGAGGTAATCCCTGTCCATCACCTAGTTATCATGACAGAACCTGCCATCAGGAATTCAAAGTGGCTG
GAGGTTGATACATGGGAAAGTCTTCAGAAGGAGTGGACAGAGACTGTTAGGTGCTAAGACGCTATCAAGGGAACCTGGAG
GCCAGTAACTGTGACCACTCACAGAACTCACAGGTGCTAGAGAGGCCTGGACAGAGGAGCAAGTGGCCTGAACAATGACA
AGATCCTAGACAAAGGAAATCCTTAGATCCAAAACCAAAAGCTGTGCTGAAGGTAAAGTTGCTGTGCGGGGCAGATTTAC
TGGAGTCTTTT

Alignment

ORF - retro_ogar_1088 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.76 %
• Parental protein coverage: 58.57 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MENSEKTEVVLLACGSFNPITNMHLRLFELAKDYMNGTGKYRVIKGIISPVGDAYNKKELIPAHHRVIMA
          ME.SEKTEV.LLAC.SFNPITN.HL.LFELA..YMNGT.KYRV.KG..S.V.DA..KKE.IP.HH.VIM.
Retrocopy MEKSEKTEVALLACCSFNPITNIHLKLFELATEYMNGT*KYRVSKGMVSSVRDASIKKEVIPVHHLVIMT

Parental  ELATRNSKWLEVDTWESLQKDWTETVK-VLRHHQEKLEASNCDHSQNSPVLERPGRKRKWTEPRQDSSQK
          E.A.RNSKWLEVDTWESLQK.WTETV..VLR..Q..LEASNCDHSQNS.VLERPG...KW.E..QD..Q.
Retrocopy EPAIRNSKWLEVDTWESLQKEWTETVR<VLRRYQGNLEASNCDHSQNSQVLERPGQRSKWPEQ*QDPRQR

Parental  KSLDPKPKDVPKVKLLCGADLLESF
          KSLDPKPK.V.KVKLLCGADLLESF
Retrocopy KSLDPKPKAVLKVKLLCGADLLESF

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_1088 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 7 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000001361	2 retrocopies	retro_btau_1153, retro_btau_1654,
Callithrix jacchus	ENSCJAG00000005483	1 retrocopy	retro_cjac_1690,
Homo sapiens	ENSG00000173614	3 retrocopies	retro_hsap_247, retro_hsap_2740, retro_hsap_2989,
Macaca mulatta	ENSMMUG00000005863	2 retrocopies	retro_mmul_1488, retro_mmul_446,
Nomascus leucogenys	ENSNLEG00000009375	2 retrocopies	retro_nleu_1072, retro_nleu_741,
Oryctolagus cuniculus	ENSOCUG00000023212	1 retrocopy	retro_ocun_1243,
Otolemur garnettii	ENSOGAG00000033037	2 retrocopies	retro_ogar_1088 , retro_ogar_637,