RetrogeneDB ID: retro_ogar_1274

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873541.1:5454435..5454935(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZRANB2
• Ensembl ID: ENSOGAG00000000485
• Aliases: None
• Description: zinc finger, RAN-binding domain containing 2 [Source:HGNC Symbol;Acc:13058]

Sequence

>retro_ogar_1274
GGGAAAGAAGTTGGTCCTACATCTATATTGAAGGATGTTGAAGATAAAGAATAAGAGGGAGAAGACTAGTATAAAAATCT
TTCTAAATATAAATTAAATGAGGATGATGCTGAGCTCTCAAAATATAATCTTGATACCAGTGAAGAAGAAGATAGTAATA
AAAAGAAATCTAATAGACCAGTTGCTCAAAGTCTTGATCTTCACATTCACCATCTTCCATAATGCTCATCCTCCCCCTCA
AAGTCTAGATCCAGGTCCTGTTCTAGAAGTTCTTCCAGTTCACAGTCAAGATTTTGTTCCAGTTCCAGAGAACATTTGTG
ATCTCATAGGTCAAAATCAAGATCCAGCTCCGGGCCCCACAGAGGCTCCTTTCCCCCATGAAAAAGATCTCACTCAAGTT
CATCATCTTCTCCTGAAAGGGAAAAAAGAGAAGTCGTTCTAGATCTTCTTCATCTGGTGATCACAAAAAGAGATGAACAA
GATCACGGTCACCTAAAAGG

Alignment

ORF - retro_ogar_1274 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.47 %
• Parental protein coverage: 53.03 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  GKAVGPASILKEVEDKESEGEDEDEDEDLSKYKLDEDEDEDDADLSKYNLDASEEEDSHKKKSNR-RSRS
          GK.VGP.SILK.VEDKE.EGE..D....LSKYKL.....EDDA.LSKYNLD.SEEEDS.KKKSNR..S.S
Retrocopy GKEVGPTSILKDVEDKE*EGE--D*YKNLSKYKLN----EDDAELSKYNLDTSEEEDSNKKKSNR<TSCS

Parental  KSRSSHSRSSSR-SSSPSSSRSRSRSRSRSSSSSQSRSRSSSRERSRSRGSKSRSSSRSHRGSSSPRKRS
          KS.SSHS.SS...SSSPS...SRSRS.SRSSSSSQSR..SSSRE...S..SKSRSSS..HRGS..P.KRS
Retrocopy KS*SSHSPSSIM>SSSPS--KSRSRSCSRSSSSSQSRFCSSSREHL*SHRSKSRSSSGPHRGSFPP*KRS

Parental  YSSSSSSPER-NRKRSRSRSSSSGDRKKRRTRSRSPER
          .SSSSSSPER...KRSRSRSSSSGD.KKR.TRSRSP.R
Retrocopy HSSSSSSPER<GKKRSRSRSSSSGDHKKR*TRSRSPKR

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_1274 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 5 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006356	2 retrocopies	retro_cjac_2350, retro_cjac_4199,
Monodelphis domestica	ENSMODG00000000504	2 retrocopies	retro_mdom_1975, retro_mdom_443,
Oryctolagus cuniculus	ENSOCUG00000004640	2 retrocopies	retro_ocun_1170, retro_ocun_776,
Otolemur garnettii	ENSOGAG00000000485	4 retrocopies	retro_ogar_1274 , retro_ogar_1841, retro_ogar_2843, retro_ogar_976,
Pan troglodytes	ENSPTRG00000000856	1 retrocopy	retro_ptro_3251,