RetrogeneDB ID:

retro_nleu_239

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397262.1:12960022..12960535(+)
Located in intron of:ENSNLEG00000006955
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ARPC3
Ensembl ID:ENSNLEG00000002802
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_239
TCTCTCATGGATCCTGACACCAAACTCATCGGAAACATAGCACTTTACCTATCAGAAGTCAATTCAAAGGACCTGCCCCC
AGAGAGACAAAAGATACAGATATTGTGGATGAAGCATCTATTACTTCAAGGCCCATGTCTTCTTCAAAAACTATGAAATT
AAGAATGAAGCTGATAGGACCTTGATATATATATCTCTCTACATTTCTGAATGTCTGAAAAAACTCCAAAAGTGCAATTC
CAAAAGCCAAGGTGAGAAAGAAATGTATACACTGGGAATCACTAGTTTTCCCATTCCTGGAGACCCTGGTTTTCCACTTA
ACGCAATTTATACCAAACCTGCAAAAAATAGGAAGATGAAGTGATGAGAGCCTATTTACAACAGCTAAGGCAAGAGACTG
GACTGAGACTTTGTGAGGAAGTTTTCGACCCTCAGAATGATAAACCCAGCAAGTGGTGGACTTGCTTTGTGAAGAGACAG
TTCGTGAACAAGAGTCTTTCAGGAACTGGACAG

ORF - retro_nleu_239 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.43 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalSLMDPDTKLIGNMAL-LPIRSQFKG-APRETKDTDIVDEA-IYYFKANVFFKNYEIKNEADRTLIYITLY
SLMDPDTKLIGN.AL.LPIRSQFKG.APRETKDTDIVDEA.IYYFKA.VFFKNYEIKNEADRTLIYI.LY
RetrocopySLMDPDTKLIGNIAL<LPIRSQFKGPAPRETKDTDIVDEA<IYYFKAHVFFKNYEIKNEADRTLIYISLY
ParentalISECLKKLQKCNSKSQGEKEMYTLGITNFPIPGEPGFPLNAIYAKPA-NKQEDEVMRAYLQQLRQETGLR
ISECLKKLQKCNSKSQGEKEMYTLGIT.FPIPG.PGFPLNAIY.KPA..K.EDEVMRAYLQQLRQETGLR
RetrocopyISECLKKLQKCNSKSQGEKEMYTLGITSFPIPGDPGFPLNAIYTKPA<KK*EDEVMRAYLQQLRQETGLR
ParentalLCEKVFDPQNDKPSKWWTCFVKRQFMNKSLSGPGQ
LCE.VFDPQNDKPSKWWTCFVKRQF.NKSLSG.GQ
RetrocopyLCEEVFDPQNDKPSKWWTCFVKRQFVNKSLSGTGQ

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Nomascus leucogenys was not studied using RNA-Seq expression data.
Nomascus leucogenys was not studied using ChIP-Seq data.
Nomascus leucogenys was not studied using EST data.
Nomascus leucogenys was not studied using FANTOM5 data.
retro_nleu_239 was not experimentally validated.

Retrocopy orthology:
Nomascus leucogenys 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.

Parental genes homology:
Parental genes homology involve 18 parental genes, and 40 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000084561 retrocopy
Callithrix jacchus ENSCJAG000000093601 retrocopy
Dasypus novemcinctus ENSDNOG000000049872 retrocopies
Erinaceus europaeus ENSEEUG000000115312 retrocopies
Felis catus ENSFCAG000000041322 retrocopies
Loxodonta africana ENSLAFG000000061663 retrocopies
Macaca mulatta ENSMMUG000000064923 retrocopies
Monodelphis domestica ENSMODG000000116281 retrocopy
Nomascus leucogenys ENSNLEG00000002802 4 retrocopies
Oryctolagus cuniculus ENSOCUG000000119081 retrocopy
Otolemur garnettii ENSOGAG000000134241 retrocopy
Oreochromis niloticus ENSONIG000000037851 retrocopy
Procavia capensis ENSPCAG000000118582 retrocopies
Pongo abelii ENSPPYG000000049476 retrocopies
Sarcophilus harrisii ENSSHAG000000148053 retrocopies
Tarsius syrichta ENSTSYG000000029534 retrocopies
Tursiops truncatus ENSTTRG000000150832 retrocopies
Vicugna pacos ENSVPAG000000084041 retrocopy



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