RetrogeneDB ID:

retro_nleu_2968

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397533.1:640892..641661(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSNLEG00000011711
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS4XP21
Ensembl ID:ENSNLEG00000018121
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_2968
GTGGCTTCTGGTCCCAAGCAGCATCTGAAACAGGTAGCAGCTCCACAGCATTTGATGCTGGATAAATTGATTGGGGGGTT
TGTGGTTGTTCCTTCCACCGGTCCCCACAAGTTGAGAGATGTCCCCTTCATATTTTTTTAGGGAACAGACTTAAGTATGC
CCTGACAGGAGGCGAAGTAAAGAAGATTTGCATGCAGTGGTTCATTAAGGTAGATGGCAAGGTTCGAACTGATACAACCT
ACCCTACTGGATTTATGGATGTCATCAGCATTGACAAGATGGGAGAGGATTTCCGTTTGATCTATGGCATCAATTGTCGC
TTTGCTGTACATCGTATTACACCTGAGGAAGTCAAGTACAAGTTATGCAAAATGAGAAAAATCTGTGTGTGCACAAAAGG
AATCCCTCACCTGGTGATTCATGATGCTCACACCATCCACCACCCTGATTCCCTCATTAAGGTGAACGACACCATTCTGA
TTGATTTGGAGACTGGCAAGATCACTGCTTTGAAGTTCAACACTGGTAACCTGTGTTTGGTGACTGGAGGTGCTAACTGG
GGAAGAATTGGTGTGATCACCAACAGAGAGAGGCACCCTGGATCTTTTGACATGATTCACGTGAAAGATGCCAACAGCAA
CAGCTTTTCCATCATTTTTGTTATTGACAAGGGCAACAAACCATGGATTTCTCTTCCCCGAGGAAAGGGTATCCGCTTCA
CCATTGCTGAAGGGAGAGACAAGAGACTGCAGCCAAACAGAGCAGTGGG

ORF - retro_nleu_2968 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.25 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRE-CLPLIIFLRNRLKYALTGDEVKKICMQRF
.A.GPK.HLK.VAAP.H.MLDKL.G.F...PSTGPHKLR..C.PL.IFL.NRLKYALTG.EVKKICMQ.F
RetrocopyVASGPKQHLKQVAAPQHLMLDKLIGGFVVVPSTGPHKLRD<C-PLHIFLGNRLKYALTGGEVKKICMQWF
ParentalIKIDGKVRTDITYPAGFMDVISIDKTGENFRLIYDTKGRFAVHRITPEEAKYKLCKVRKIFVGTKGIPHL
IK.DGKVRTD.TYP.GFMDVISIDK.GE.FRLIY....RFAVHRITPEE.KYKLCK.RKI.V.TKGIPHL
RetrocopyIKVDGKVRTDTTYPTGFMDVISIDKMGEDFRLIYGINCRFAVHRITPEEVKYKLCKMRKICVCTKGIPHL
ParentalVTHDARTIRYPDPLIKVNDTIQIDLETGKITDFIKFDTGNLCMVTGGANLGRIGVITNRERHPGSFDVVH
V.HDA.TI..PD.LIKVNDTI.IDLETGKIT...KF.TGNLC.VTGGAN.GRIGVITNRERHPGSFD..H
RetrocopyVIHDAHTIHHPDSLIKVNDTILIDLETGKIT-ALKFNTGNLCLVTGGANWGRIGVITNRERHPGSFDMIH
ParentalVKDANGNSFATRLSNIFVIGKGNKPWISLPRGKGIRLTIAEERDKRL-AAKQSSG
VKDAN.NSF....S.IFVI.KGNKPWISLPRGKGIR.TIAE.RDKRL.AAKQSSG
RetrocopyVKDANSNSF----SIIFVIDKGNKPWISLPRGKGIRFTIAEGRDKRL<AAKQSSG

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_2968 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 21 parental genes, and 194 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000146011 retrocopy
Bos taurus ENSBTAG000000188005 retrocopies
Canis familiaris ENSCAFG000000171512 retrocopies
Callithrix jacchus ENSCJAG000000041922 retrocopies
Cavia porcellus ENSCPOG000000063373 retrocopies
Equus caballus ENSECAG000000108526 retrocopies
Homo sapiens ENSG000001298241 retrocopy
Homo sapiens ENSG0000019803419 retrocopies
Meleagris gallopavo ENSMGAG000000096711 retrocopy
Microcebus murinus ENSMICG0000001660658 retrocopies
Monodelphis domestica ENSMODG000000110701 retrocopy
Mustela putorius furoENSMPUG0000000529411 retrocopies
Mus musculus ENSMUSG0000003132013 retrocopies
Nomascus leucogenys ENSNLEG00000018121 25 retrocopies
Otolemur garnettii ENSOGAG000000118082 retrocopies
Pongo abelii ENSPPYG0000002046224 retrocopies
Pan troglodytes ENSPTRG000000220259 retrocopies
Pan troglodytes ENSPTRG000000224701 retrocopy
Rattus norvegicus ENSRNOG000000032011 retrocopy
Sus scrofa ENSSSCG000000124055 retrocopies
Vicugna pacos ENSVPAG000000109524 retrocopies



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