RetrogeneDB ID: retro_ogar_827

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873528.1:30250604..30251366(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GOT2
• Ensembl ID: ENSOGAG00000000551
• Aliases: None
• Description: glutamic-oxaloacetic transaminase 2, mitochondrial [Source:HGNC Symbol;Acc:4433]

Sequence

>retro_ogar_827
CAATACCTCTCTGTGAAGGCTTGTGGCTTTGACTTCACAGGCTCCATGGAGGATGTTTCCCAAATACTAGAGCAAAGTGT
TCTTCTCCCGCATGCCTGTGCTCACATCCCACAGGAGTGGACCCTCATCCACAGCGGTAGAAGGAAATAGAGTCAGTGGA
GAAGAAAAGCAATTTCTTTGGGTTCTTTGACATGGCCCACCAAAATTTTGCCAGTGGTGATGGTAACAAGGATGCCTGGG
ATGTGGGCTACTTCACTGAACAGGGCATTATTGTTTGTCTCTGTCAATCATATGTAAAGAAACACAGGCTTATATGGTGA
ATATGTGGGAGATTTTATTGTGATCTGCTAAGATGCTGAAGAAGCCAAAGGGTGAAGTCATAGTTGAAGATCTGGATCCA
GCCCATGTATTCCAGCCCTCCTCTCAATGGAGCCCATGTTGCTTCTATGATTCTGGCCACCCCAAATTTGCAAAAACAAT
GGCTGCAAGAAGTGAAAGCATGGCAAATCGCATATTGTCACGCAAACTCAGCTGGTCTCCAACCTCAAGAAGGAGGGCTC
CTTCCACAACTGGCAACATATCACTGATCAGATTGGAATGTTTTGTTTCACAAGACTAAAGCCTGAACAGGTGATGGATT
AGCTAACCAAGGAGTTCTTCGAGTTCTTCATTTATATGACAAAGGATGGCTGCATATCTGAGGCAGGTGTCACCTCTAGC
AACATGGGATAATTTGCCCATGCTATTCACCAGGTCGCCAAG

Alignment

ORF - retro_ogar_827 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.92 %
• Parental protein coverage: 58.37 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  RYYDPKTCGFDFTGAMEDISKIPEQSVLLLHACAH-NPTGVDPRPEQWKEIATLVKKKNLFAFFDMAYQG
          .Y...K.CGFDFTG.MED.S.I.EQSVLL.HACAH..PTGVDP.P...KEI....KK.N.F.FFDMA.Q.
Retrocopy QYLSVKACGFDFTGSMEDVSQILEQSVLLPHACAH<HPTGVDPHPQR*KEIESVEKKSNFFGFFDMAHQN

Parental  FASGDGNKDAWAVRHFIEQGINVCLCQSYAK-NMGLYGERVGAFTVICKDAEEAK-RVESQLKILIRPMY
          FASGDGNKDAW.V..F.EQGI.VCLCQSY.K.N.GLYGE.VG.F.VIC.DAEEAK.RV.S.LKI.I.PMY
Retrocopy FASGDGNKDAWDVGYFTEQGIIVCLCQSYVK>NTGLYGEYVGDFIVIC*DAEEAK<RVKS*LKIWIQPMY

Parental  SNPPLNGARIASTILTTPDLRKQWLQEVK-GMADRIIGMR-TQLVSNLKKEGSSHSWQHITDQIGMFCFT
          S.PPLNGA..AS.IL.TP.L.KQWLQEVK..MA.RI.....TQLVSNLKKEGS.H.WQHITDQIGMFCFT
Retrocopy SSPPLNGAHVASMILATPNLQKQWLQEVK<SMANRILSRK<TQLVSNLKKEGSFHNWQHITDQIGMFCFT

Parental  GLKPEQV-ERLTKEF---SIYMTKDGRISVAGVTSSNVGYLAHAIHQVTK
          .LKPEQV...LTKEF....IYMTKDG.IS.AGVTSSN.G..AHAIHQV.K
Retrocopy RLKPEQVMD*LTKEFFEFFIYMTKDGCISEAGVTSSNMG*FAHAIHQVAK

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_827 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 11 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017346	3 retrocopies	retro_amel_1805, retro_amel_815, retro_amel_846,
Canis familiaris	ENSCAFG00000008357	2 retrocopies	retro_cfam_586, retro_cfam_816,
Callithrix jacchus	ENSCJAG00000011234	1 retrocopy	retro_cjac_2916,
Gorilla gorilla	ENSGGOG00000005767	3 retrocopies	retro_ggor_2912, retro_ggor_449, retro_ggor_774,
Macaca mulatta	ENSMMUG00000006000	1 retrocopy	retro_mmul_1337,
Mustela putorius furo	ENSMPUG00000004862	1 retrocopy	retro_mputfur_567,
Oryctolagus cuniculus	ENSOCUG00000003871	1 retrocopy	retro_ocun_1516,
Otolemur garnettii	ENSOGAG00000000551	2 retrocopies	retro_ogar_2182, retro_ogar_827 ,
Pongo abelii	ENSPPYG00000007413	3 retrocopies	retro_pabe_3640, retro_pabe_823, retro_pabe_901,
Rattus norvegicus	ENSRNOG00000011782	1 retrocopy	retro_rnor_2695,
Tupaia belangeri	ENSTBEG00000001808	1 retrocopy	retro_tbel_3799,