RetrogeneDB ID: retro_ogar_1323

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873543.1:3879260..3879685(+)
• Located in intron of: ENSOGAG00000001076

Retrocopy information

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

Parental gene information

• Parental gene symbol: NOP16
• Ensembl ID: ENSOGAG00000000824
• Aliases: None
• Description: NOP16 nucleolar protein [Source:HGNC Symbol;Acc:26934]

Sequence

>retro_ogar_1323
CAGTGCTCACGCATCTAACATGCCTGCGACCACGCTAACTCAGTGTGGCAGATCCTGGTCAATATGGGATTGCGTATGGA
CCCCAACAAGGCATTACCCTTACGTAAGAGAAAAGTGAAGGCCACGGAAGTGGATGTAAAGGAGAGGCCCAAGGAGCTTG
TACAGAAGCCCTATGTACTGAATGACCTGGAGGCAGAAGCCAGCCTTCCAGAAAAGAAAGGAAATAGACTATCTCAGGAT
CTCATTGACTATGTGTGCTGCATGATGGAGAATCAAGACTAAAAGGCCATGGCCCAAGATGAGAAGAATTATTATCAAGA
TACCCCGAAACAGATTTGGAAAAGATCAACGTCTATAAACATTTTTATCCAGTGGAGTGGCAAGCCTTCATTGATTCTTT
GCCGAAGGATAAGATGGAGGTTGAG

Alignment

ORF - retro_ogar_1323 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80. %
• Parental protein coverage: 80.9 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ECSHIRHAWDHAKSVRQNLAEMGLAMDPNKALPLRKRKVKAMEVDVEERPKELVRKPYVLNDLEAEASLP
          .CS.I.HA.DHA.SV.Q.L..MGL.MDPNKALPLRKRKVKA.EVDV.ERPKELV.KPYVLNDLEAEASLP
Retrocopy QCSRI*HACDHANSVWQILVNMGLRMDPNKALPLRKRKVKATEVDVKERPKELVQKPYVLNDLEAEASLP

Parental  EKKGNTLSRDLIDYVRYMVENHGEDYKAMARDEKNYYQDTPKQI-RNKINVYKRFYPTEWQAFIDSLQKD
          EKKGN.LS.DLIDYV..M.EN...D.KAMA.DEKNYYQDTPKQI...KINVYK.FYP.EWQAFIDSL.KD
Retrocopy EKKGNRLSQDLIDYVCCMMEN--QD*KAMAQDEKNYYQDTPKQI<LEKINVYKHFYPVEWQAFIDSLPKD

Parental  KMEVE
          KMEVE
Retrocopy KMEVE

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_1323 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000016694	2 retrocopies	retro_cfam_1790, retro_cfam_1793,
Callithrix jacchus	ENSCJAG00000012315	1 retrocopy	retro_cjac_2208,
Echinops telfairi	ENSETEG00000010391	1 retrocopy	retro_etel_1329,
Mustela putorius furo	ENSMPUG00000012552	1 retrocopy	retro_mputfur_381,
Otolemur garnettii	ENSOGAG00000000824	2 retrocopies	retro_ogar_1323 , retro_ogar_2299,
Rattus norvegicus	ENSRNOG00000017284	1 retrocopy	retro_rnor_2739,
Sus scrofa	ENSSSCG00000029577	1 retrocopy	retro_sscr_510,
Ictidomys tridecemlineatus	ENSSTOG00000004869	1 retrocopy	retro_itri_1124,