RetrogeneDB ID:

retro_nleu_1639

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397302.1:16652265..16653162(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPLP0
Ensembl ID:ENSNLEG00000000292
Aliases:None
Description:ribosomal protein, large, P0 [Source:HGNC Symbol;Acc:10371]


Retrocopy-Parental alignment summary:






>retro_nleu_1639
CAACTATTGGATGATTATCCGAAATGTTCCATCGTGGGAGCAGACAATGTGGGCTCCAAGCAGATGCAGCAGATCCGCAT
GTCCCTTCGCGGGAAGGCCGTGGTGCTGATGGGCAAGAACACCATGATGCACAAGGCCATCCGAGGGCACCTGGAAAACA
ACCCAGCTCTGGAGAAACTGCTGCCTCATATCTGGGGGAATGTGGGCTTTGCGTTCACCAAGAAGGACCTCACTGAGATC
AGGGACATGTTGCTGGCCAATAAGGTGCCAGCTGCTGCCCGTGCTGGTGCCATTGCCCCATGTGAAGTCACTGTGCCAGC
CCAGAACACTGGTCTCAGGCCCTAGAAGACCTCCTTTTTCCAGGCTTTAGGTGTCACCACTAAAATCTCCAGGGGCACCA
TTGAAATCCTGAGTGATGTGCAGCTGATCAAGACGGGAGACAGAGTGGGAGCCAGCGAAGCCACGCTGCTGAACATGCTC
AACATCTCCCCCTTCTCCTTTGGGCTGGTCATCCAGCAGGTGTTCGAAAATGGCAGCATCTACAACCCCGAAGTGCTTGA
CATCACAGAGGAAACTCTGCATTCTTGCTTTCTGGAGGGTGTCCGCAACGTTGCCAGTGTCTGTCTGCAGATTGGCTACC
CAACCGTTGCATCAGTACCCCATTCTATCATCAGTGGGTACAAACGAGTCCTGGCCTTGTCTGTGGAGACGGATTACACC
TTCCCACTTGCTGAAAAGGTCAAGGCCTTCTTGGCTGATCCATCTGCCTTTGTGGCTGCTGCACCTGTGGCCGCTGCCAC
CACAGCTGCTCCTGCTGCTGCTGCAGCCCCAGCTAAGGTTGAAGCCAAGGAAGAGTCGGAGGAGTCGGACAAGGATATGG
GATTTGGTCTCTTTGAC

ORF - retro_nleu_1639 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.3 %
Parental protein coverage: 98.68 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHLENNPALEKLLPHIRGNVGF
QLLDDYPKC.IVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMM.KAIRGHLENNPALEKLLPHI.GNVGF
RetrocopyQLLDDYPKCSIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMHKAIRGHLENNPALEKLLPHIWGNVGF
ParentalVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTVPAQNTGLGPEKTSFFQALGITTKISRGTIEILSDV
.FTK.DLTEIRDMLLANKVPAAARAGAIAPCEVTVPAQNTGL.P.KTSFFQALG.TTKISRGTIEILSDV
RetrocopyAFTKKDLTEIRDMLLANKVPAAARAGAIAPCEVTVPAQNTGLRP*KTSFFQALGVTTKISRGTIEILSDV
ParentalQLIKTGDKVGASEATLLNMLNISPFSFGLVIQQVFDNGSIYNPEVLDITEETLHSRFLEGVRNVASVCLQ
QLIKTGD.VGASEATLLNMLNISPFSFGLVIQQVF.NGSIYNPEVLDITEETLHS.FLEGVRNVASVCLQ
RetrocopyQLIKTGDRVGASEATLLNMLNISPFSFGLVIQQVFENGSIYNPEVLDITEETLHSCFLEGVRNVASVCLQ
ParentalIGYPTVASVPHSIINGYKRVLALSVETDYTFPLAEKVKAFLADPSAFVAAAPVAAATTAAPAAAAAPAKV
IGYPTVASVPHSII.GYKRVLALSVETDYTFPLAEKVKAFLADPSAFVA...................KV
RetrocopyIGYPTVASVPHSIISGYKRVLALSVETDYTFPLAEKVKAFLADPSAFVAXXXXXXXXXXXXXXXXXXXKV
ParentalEAKEESEESDEDMGFGLFD
EAKEESEESD.DMGFGLFD
RetrocopyEAKEESEESDKDMGFGLFD

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_1639 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 83 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000051444 retrocopies
Canis familiaris ENSCAFG000000102275 retrocopies
Choloepus hoffmanni ENSCHOG000000027452 retrocopies
Callithrix jacchus ENSCJAG000000086773 retrocopies
Felis catus ENSFCAG000000133541 retrocopy
Gorilla gorilla ENSGGOG000000265825 retrocopies
Myotis lucifugus ENSMLUG0000000197011 retrocopies
Macaca mulatta ENSMMUG000000091572 retrocopies
Mustela putorius furoENSMPUG000000030554 retrocopies
Mus musculus ENSMUSG000000672742 retrocopies
Nomascus leucogenys ENSNLEG00000000292 11 retrocopies
Oryctolagus cuniculus ENSOCUG000000057492 retrocopies
Otolemur garnettii ENSOGAG000000038434 retrocopies
Petromyzon marinus ENSPMAG000000013391 retrocopy
Pongo abelii ENSPPYG000000050225 retrocopies
Pteropus vampyrus ENSPVAG000000031103 retrocopies
Rattus norvegicus ENSRNOG000000011483 retrocopies
Sarcophilus harrisii ENSSHAG000000016232 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000113274 retrocopies
Tarsius syrichta ENSTSYG000000097327 retrocopies
Vicugna pacos ENSVPAG000000121562 retrocopies



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