RetrogeneDB ID: retro_ogar_3510

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL874071.1:16762..17599(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000033727
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ANXA2
• Ensembl ID: ENSOGAG00000009952
• Aliases: None
• Description: annexin A2 [Source:HGNC Symbol;Acc:537]

Sequence

>retro_ogar_3510
ATGTCTACTGTTCATGAGATTCTGAGCAAACTCAGCTTGGAGGGTGACCACTCCACACCCGTAAGTGCATATTGGGTCAG
TCAAAGCCTACACCAACTTTGATGCTGAGCGGGATGCTTTGAACACTGAGATGGCCATCAAGACCAAAGGTGTGGACGAG
GTCACCACCATCAACATTTTGACCAACCGCAGCAATCCACAGAGACAGGACGTCACCTTCACCTACCAGAACAGGACCAA
AAAGGAACTGGCATCAGCACTGAAGTCAGCCTTATCTGGCCACCTGGAGATGGTGATTTTGGGCCTCTTGAAGACACCTG
CTCAGTATGCTGCTTCAGAGCTAAAAGCTTCCATGAAGGGGCTGGGAACTGACGAGGACTCCCTCATTGAGATCATCTGC
TCCAGGACCAACCAGGAGCTACAGGAAATTAACAGAGTCTACAAGGAAATGTACAAGACTGACCTGGAGAAGGACATTGT
TTCTGACACATCTGAAGACTCCCGCAAGCTGATGGTTGACCTTGCAAAGGGTAGAAGAGTAGAGGCTGGCTCAGTCATTG
GTTATGAACTGATTGACCAAGATGCCCAGATCTCTATGATGCTGGAGTGAAGAGGAAAGGAACCGATGTTCCCAAGTGGA
TCAGCATCATGACGGAGCGGAGTGTGTGCCACCTCCAGAAAGTATTTGATAGGTATAAGAGCTACAGCCCTCACGACATG
TTGGAGAGCACCAAGAAGGAGGTCAAGGGAGACTTGGAGAATGCGTTCCTGAACTTGGTCCAGCGCACTCAGAACAAGCC
CCTGTACTTTGTTGATCGGCTGTATGATTCCATGAAG

Alignment

ORF - retro_ogar_3510 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.75 %
• Parental protein coverage: 82.3 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSTVHEILCKLSLEGDHSTPPSAY-GSVKAYTNFDAERDALNIETAIKTKGVDEVTIVNILTNRSNPQRQ
          MSTVHEIL.KLSLEGDHSTP.SAY.GSVKAYTNFDAERDALN.E.AIKTKGVDEVT..NILTNRSNPQRQ
Retrocopy MSTVHEILSKLSLEGDHSTPVSAY>GSVKAYTNFDAERDALNTEMAIKTKGVDEVTTINILTNRSNPQRQ

Parental  DIAFAYQRRTKKELASALKSALSGHLETVILGLLKTPAQYDASELKASMKGLGTDEDSLIEIICSRTNQE
          D..F.YQ.RTKKELASALKSALSGHLE.VILGLLKTPAQY.ASELKASMKGLGTDEDSLIEIICSRTNQE
Retrocopy DVTFTYQNRTKKELASALKSALSGHLEMVILGLLKTPAQYAASELKASMKGLGTDEDSLIEIICSRTNQE

Parental  LQEINRVYKEMYKTDLEKDIVSDTSGDFRKLMVALAKGRRAEDGSVIDYELIDQDAR-DLYDAGVKRKGT
          LQEINRVYKEMYKTDLEKDIVSDTS.D.RKLMV.LAKGRR.E.GSVI.YELIDQDA..DLYDAGVKRKGT
Retrocopy LQEINRVYKEMYKTDLEKDIVSDTSEDSRKLMVDLAKGRRVEAGSVIGYELIDQDAQ<DLYDAGVKRKGT

Parental  DVPKWISIMTERSVCHLQKVFDRYKSYSPYDMLESIKKEVKGDLENAFLNLVQCIQNKPLYFADRLYDSM
          DVPKWISIMTERSVCHLQKVFDRYKSYSP.DMLES.KKEVKGDLENAFLNLVQ..QNKPLYF.DRLYDSM
Retrocopy DVPKWISIMTERSVCHLQKVFDRYKSYSPHDMLESTKKEVKGDLENAFLNLVQRTQNKPLYFVDRLYDSM

Parental  K
          K
Retrocopy K

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_3510 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 14 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000016686	3 retrocopies	retro_cfam_1631, retro_cfam_367, retro_cfam_707,
Felis catus	ENSFCAG00000007862	2 retrocopies	retro_fcat_594, retro_fcat_709,
Macropus eugenii	ENSMEUG00000008980	3 retrocopies	retro_meug_1000, retro_meug_312, retro_meug_389,
Myotis lucifugus	ENSMLUG00000002464	3 retrocopies	retro_mluc_1569, retro_mluc_2223, retro_mluc_2431,
Monodelphis domestica	ENSMODG00000011604	1 retrocopy	retro_mdom_1471,
Mustela putorius furo	ENSMPUG00000000762	2 retrocopies	retro_mputfur_73, retro_mputfur_79,
Otolemur garnettii	ENSOGAG00000003878	1 retrocopy	retro_ogar_2257,
Otolemur garnettii	ENSOGAG00000009311	1 retrocopy	retro_ogar_108,
Otolemur garnettii	ENSOGAG00000009952	1 retrocopy	retro_ogar_3510 ,
Otolemur garnettii	ENSOGAG00000011321	1 retrocopy	retro_ogar_2201,
Pan troglodytes	ENSPTRG00000007132	2 retrocopies	retro_ptro_2106, retro_ptro_81,
Tupaia belangeri	ENSTBEG00000001276	1 retrocopy	retro_tbel_3335,
Tarsius syrichta	ENSTSYG00000003719	1 retrocopy	retro_tsyr_2086,
Vicugna pacos	ENSVPAG00000007888	2 retrocopies	retro_vpac_241, retro_vpac_27,