RetrogeneDB ID: retro_ogar_2866

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873673.1:685315..685873(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000030921
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: LYPLA2
• Ensembl ID: ENSOGAG00000032260
• Aliases: None
• Description: lysophospholipase II [Source:HGNC Symbol;Acc:6738]

Sequence

>retro_ogar_2866
ACCATCCGGCTCCCTCAGGTCAAATACATCTGTCCCCATGCGCCTAGGATCCCTGTGACACTCAACATAAAGATGGTGAT
GCCCTCCTGGTTTGACCTGATGGGGTTGAGTCCAGATGCCCCAGAAGATGAAGCTGGCATCAAGAAGGTAGCAGAGAACA
TCAAGGCCTTGATTGAGCATGAGATGAAGAATGGGATCCCTGCCAATTGTATCGTCCTGGGAGGCTTTTCACAGGGTGGA
GCCCTATCCCTCTACACAGCCCTTGCCTGCCCCCACCCTCTGGCTGGCATTGTGACACTGAGCTGTTGGCTCCCTTTGCA
CGGGGCCTTCCCCCAGGCAGCCAATGGCAGTGCCATGGACCTGGCCATCCTTCAGTGCCATGGGGAGCTAGACCCCATGG
TACCTGTATGGTTTGGGGCCCTGACAGCTGAGAAGCTCCAGTCTGTTGTCACACTTGCTAGGGTCCAGTTCAAGACATAT
CCAGGTGCTATGCACAGCTCCTGTCCTCAGGAGATGGCAGCTGTGAAGGAATTTCTTGAGAAGCTGCTGCCTCCTGTC

Alignment

ORF - retro_ogar_2866 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.55 %
• Parental protein coverage: 80.52 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TIRLPHVKYICPHAPRIPVTLNMKMVMPSWFDLMGLSPDAPEDEAGIKKAAENIKALIEHEMKNGIPANR
          TIRLP.VKYICPHAPRIPVTLN.KMVMPSWFDLMGLSPDAPEDEAGIKK.AENIKALIEHEMKNGIPAN.
Retrocopy TIRLPQVKYICPHAPRIPVTLNIKMVMPSWFDLMGLSPDAPEDEAGIKKVAENIKALIEHEMKNGIPANC

Parental  IVLGGFSQGGALSLYTALTCPHPLAGIVALSCWLPLHRAFPQAANGSAKDLAILQCHGELDPMVPVRFGA
          IVLGGFSQGGALSLYTAL.CPHPLAGIV.LSCWLPLH.AFPQAANGSA.DLAILQCHGELDPMVPV.FGA
Retrocopy IVLGGFSQGGALSLYTALACPHPLAGIVTLSCWLPLHGAFPQAANGSAMDLAILQCHGELDPMVPVWFGA

Parental  LTAEKLRSVVTPARVQFKTYPGVMHSSCPQEMAAVKEFLEKLLPPV
          LTAEKL.SVVT.ARVQFKTYPG.MHSSCPQEMAAVKEFLEKLLPPV
Retrocopy LTAEKLQSVVTLARVQFKTYPGAMHSSCPQEMAAVKEFLEKLLPPV

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_2866 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 12 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000011625	1 retrocopy	retro_btau_1605,
Callithrix jacchus	ENSCJAG00000020914	1 retrocopy	retro_cjac_2585,
Dasypus novemcinctus	ENSDNOG00000011285	2 retrocopies	retro_dnov_1186, retro_dnov_134,
Homo sapiens	ENSG00000011009	3 retrocopies	retro_hsap_2023, retro_hsap_3577, retro_hsap_4180,
Gorilla gorilla	ENSGGOG00000004330	3 retrocopies	retro_ggor_2114, retro_ggor_2413, retro_ggor_2626,
Macropus eugenii	ENSMEUG00000004768	2 retrocopies	retro_meug_1134, retro_meug_1526,
Microcebus murinus	ENSMICG00000005841	1 retrocopy	retro_mmur_1166,
Nomascus leucogenys	ENSNLEG00000008646	1 retrocopy	retro_nleu_2958,
Otolemur garnettii	ENSOGAG00000003767	3 retrocopies	retro_ogar_1528, retro_ogar_1530, retro_ogar_1532,
Otolemur garnettii	ENSOGAG00000032260	1 retrocopy	retro_ogar_2866 ,
Pongo abelii	ENSPPYG00000001733	1 retrocopy	retro_pabe_142,
Tursiops truncatus	ENSTTRG00000016127	1 retrocopy	retro_ttru_1522,