RetrogeneDB ID:

retro_nleu_1560

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397299.1:2818855..2819103(-)
Located in intron of:ENSNLEG00000013829
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GABARAPL2
Ensembl ID:ENSNLEG00000013048
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_1560
GTGAAGTGGGTGTTCAGAGAGGATCGCTCCTGGAACACAGGTGAGTGGAGTCCCTTAAGATCCGCGCAAAACAGCCCGGC
CGGTTCCAGCGATTATGAAAAAGTCCAGGCTCTCAGACCGCTGACCCTGATAAGTAGAAGTCCTTGGTGCCACCTGGTAT
TCTAGTGGCTCAGTCCATGTGCATCATCACGAGTAGGATCCAGCTTCCTGCTGAAAAGGCCTCTGTCCCGTTTGTGGATA
AGACAGTG

ORF - retro_nleu_1560 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.77 %
Parental protein coverage: 71.79 %
Number of stop codons detected: 2
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalMKWMFKEDHS-LEHRCVESAKIRAKYPDR-VPVIV-EKVS-GSQIVDIDKRKYLVPSDITVAQFMWIIRK
.KW.F.ED.S.LEHR.VES.KIRAK.P.R.VP.I..EKV..GSQ..D.DK.K.LVP..I.VAQ.M.II..
RetrocopyVKWVFREDRS<LEHR*VESLKIRAKQPGR<VPAIM<EKVQ<GSQTADPDK*KSLVPPGILVAQSMCIITS
ParentalRIQLPSEKAIFLFVDKTV
RIQLP.EKA...FVDKTV
RetrocopyRIQLPAEKASVPFVDKTV

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_1560 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 14 parental genes, and 26 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000054532 retrocopies
Callithrix jacchus ENSCJAG000000142531 retrocopy
Dasypus novemcinctus ENSDNOG000000022402 retrocopies
Homo sapiens ENSG000000347131 retrocopy
Gorilla gorilla ENSGGOG000000122992 retrocopies
Loxodonta africana ENSLAFG000000170652 retrocopies
Myotis lucifugus ENSMLUG000000151121 retrocopy
Macaca mulatta ENSMMUG000000057592 retrocopies
Nomascus leucogenys ENSNLEG000000080492 retrocopies
Nomascus leucogenys ENSNLEG000000115114 retrocopies
Nomascus leucogenys ENSNLEG00000013048 2 retrocopies
retro_nleu_1560 , retro_nleu_580,
Pongo abelii ENSPPYG000000075652 retrocopies
Pan troglodytes ENSPTRG000000083622 retrocopies
Rattus norvegicus ENSRNOG000000194251 retrocopy



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