RetrogeneDB ID: retro_ogar_94

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873537.1:23013016..23013403(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000024366
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: KRTAP4-1
• Ensembl ID: ENSOGAG00000003102
• Aliases: None
• Description: keratin associated protein 4-1 [Source:HGNC Symbol;Acc:18907]

Sequence

>retro_ogar_94
ATGACCAGCTCCTGCTGCGGCCCCCCCTTCTCCTCCCTGAGCTGCCAGGAAGGCTGCTGCCAGCCCTGCTGCTGGCGCGA
CCCCTGCTGCTGCCGCCCAGTGTCCTGCCAGACCACCGTGTGCCGCCCCGTGACCTGCGTGCCCCGCTGCACGCGCCCCA
TCTGTGAGCCCTGCCGCCGCCCCGTGTGCTGTGACACCTGCTGCCTGCAGGAGGGCTGCTGCAGGCCCATCAGCTGCTGC
CCCACGTCATGCACAGCTGTGGTCTGCAGGCCCTGCTGCTGGGCCACCACCTGCTGCCAGCCTGTGTCTGTGCAGTCCCC
CTGCTGCCGGCCCCCCTGCTGCCAGCCAGCCCCCTGCCGCACCACCTGCAGGACCACCTGCTGCTGA

Alignment

ORF - retro_ogar_94 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.39 %
• Parental protein coverage: 52.65 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SSCCRP----VCCQTTCCRTTCCR-PSCCRPVCCQTTCCRTTCCRPSCCVSSC--C-RPQCCQSLCCKPI
          SSCC.P......CQ..CC...C.R.P.CCRPV.CQTT.CR...C.P.C....C..C.RP.CC...C....
Retrocopy SSCCGPPFSSLSCQEGCCQPCCWRDPCCCRPVSCQTTVCRPVTCVPRCTRPICEPCRRPVCCDTCCLQEG

Parental  CCRPSCCQTTCCRTTCCRPSCCVSSCCRPQCCQSVCCQPTCCRPSCCQTTCCRTTCC
          CCRP..C..T.C....CRP.C....CC.P...QS.CC.P.CC.P..C.TT.CRTTCC
Retrocopy CCRPISCCPTSCTAVVCRPCCWATTCCQPVSVQSPCCRPPCCQPAPCRTT-CRTTCC

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_94 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000005246	1 retrocopy	retro_fcat_1673,
Otolemur garnettii	ENSOGAG00000003102	1 retrocopy	retro_ogar_94 ,
Ictidomys tridecemlineatus	ENSSTOG00000004308	1 retrocopy	retro_itri_544,
Tupaia belangeri	ENSTBEG00000008312	1 retrocopy	retro_tbel_13,