RetrogeneDB ID: retro_ogar_164

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873703.1:573787..574552(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000027180
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: PGAM2
• Ensembl ID: ENSOGAG00000006713
• Aliases: None
• Description: phosphoglycerate mutase 2 (muscle) [Source:HGNC Symbol;Acc:8889]

Sequence

>retro_ogar_164
ATGGCTGCGTATAAGTTGGTGCTGATCCGGCACGGCGAGAGCGCCTGGAACCTAGAGAACCGCTTCAGCGGCTGGTACGA
CGCCGACCTGAGTCCAGCGGGCCACGAAGAGGCGAAGCGCGGCAGGCAGGCGCTTCGAGATGCTGGCTATGAATTTGACA
TCTGCTTCACCTCAGTGCAGAAGAGAGCAATCCGGACCCTCTGGACAGTGCTGGATGCCATTGACCAGATGTGGCTGCCT
GTGGTGAGGACTTGGCGCCTCAATGAGCGGCACTATGGGGGTCTGACTGGCCTCAATAAAGCAGAAACTGCAGCCAAGCA
CGGTGAAGCTCAGGTCAAGATTTGGAGGCGCTCCTATGATGTCCCCCCACCTCCGATGGAGCCTGATCATCCCTTCTATA
GTAACATCAGTAAGGATCACAGGTATGCAGATCTCACTGAAGACCAGCTGCCTTCCTGTGAGAGTCTGAAGGACACTATT
GCTAGAGCTCTGCCCTTCTGGAATGAAGAAATAGTTCCCCAGATTAAGGAGGGAAAACGGGTACTGATTGCAGCCCATGG
CAACAGCCTCCGGGGCATTGTCAAGCATCTGGAGGGTCTCTCTGAAGAGGCTATCATGGAGCTGAACCTGCCGACTGGTA
TTCCCATGGTCTACGAATTGGACAAGAACTTGAAGCCCATCAAGCCCATGCAGTTCCTGGGGGATGAAGAGACCGTTCGT
AAAGCCATGGAAGCTGTGGCTGCCCAGGGCAAGGCGAAGAAGTGA

Alignment

ORF - retro_ogar_164 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.45 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MATHRLVMVRHGESTWNQENRFCGWFDAELSEKGAEEAKRGAKAIKDAKMEFDICYTSVLKRAIRTLWAI
          MA...LV..RHGES.WN.ENRF.GW.DA.LS..G.EEAKRG..A..DA..EFDIC.TSV.KRAIRTLW..
Retrocopy MAAYKLVLIRHGESAWNLENRFSGWYDADLSPAGHEEAKRGRQALRDAGYEFDICFTSVQKRAIRTLWTV

Parental  LDGTDQMWLPVVRTWRLNERHYGGLTGLNKAETAAKHGEEQVKIWRRSFDTPPPPMDEKHPYYNSISKER
          LD..DQMWLPVVRTWRLNERHYGGLTGLNKAETAAKHGE.QVKIWRRS.D.PPPPM...HP.Y..ISK..
Retrocopy LDAIDQMWLPVVRTWRLNERHYGGLTGLNKAETAAKHGEAQVKIWRRSYDVPPPPMEPDHPFYSNISKDH

Parental  RYAGLKPGELPTCESLKDTIARALPFWNEEIAPQIKAGKRVLIAAHGNSLRGIVKHLEGMSDQAIMDLNL
          RYA.L....LP.CESLKDTIARALPFWNEEI.PQIK.GKRVLIAAHGNSLRGIVKHLEG.S..AIM.LNL
Retrocopy RYADLTEDQLPSCESLKDTIARALPFWNEEIVPQIKEGKRVLIAAHGNSLRGIVKHLEGLSEEAIMELNL

Parental  PTGIPIVYELDQALKPTKPMQFLGDEETVRKAMEAVAAQGKAK
          PTGIP.VYELD..LKP.KPMQFLGDEETVRKAMEAVAAQGKAK
Retrocopy PTGIPMVYELDKNLKPIKPMQFLGDEETVRKAMEAVAAQGKAK

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_164 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 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000024480	1 retrocopy	retro_dnov_34,
Macropus eugenii	ENSMEUG00000012920	8 retrocopies	retro_meug_1044, retro_meug_1303, retro_meug_1636, retro_meug_1838, retro_meug_202, retro_meug_2152, retro_meug_251, retro_meug_945,
Otolemur garnettii	ENSOGAG00000006713	1 retrocopy	retro_ogar_164 ,
Procavia capensis	ENSPCAG00000002181	1 retrocopy	retro_pcap_13,
Rattus norvegicus	ENSRNOG00000013532	1 retrocopy	retro_rnor_2889,
Tupaia belangeri	ENSTBEG00000004587	1 retrocopy	retro_tbel_3939,
Drosophila melanogaster	FBgn0014869	1 retrocopy	retro_dmel_57,