RetrogeneDB ID:

retro_nleu_767

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397272.1:18678575..18679299(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS3A
Ensembl ID:ENSNLEG00000005815
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_767
GTTGATCTATTTTCTAAGAAAGACTGGTATGATGTGAAAGCACCTGCTATGTTCAACGTAAGAAATATTGGAAAGACACT
AGTCACCAGGACTGAAGGAACCAAAATTGCATCAGATGGCCTCAAGGATCGTGTGTTTGAAGTGAGTCTTGCTGATCTGC
AAAATTATGAAGTTGCATTTAGAAAATTCAAGCTGATTACTAAAGGTGTTCAGGGAAAAAACTGCCTAACTTCCACGGCA
TGCATCTTACCTGTGGCAGAATGTGTTCCATGGTCAAAAAATGGCAGACATGATTGAAGCTCATGTTGATGTCAAGACTA
CTGATGGTTACTTGCTTTGTCTATTCTGTGCTGCTTTTACTAAAAAACGTAACAATCAGATATGGAAGACTTCTTACGCT
CAGCACAAACAGGTCTTCCAAATCTGGAAGAAGATGATGGAAATCATGACCCGAGAGGTACAGACAAATGACTTGAAAGA
AGTGGTCAATAAATTGATTCCAGACAGCATTGGAAAAGACATAGATAAGGCTTACCAATCTATTTATTCTCTCAATGATG
TCTTCATTAGAAAAGTAAAAATGCTGAAGAAGACCAAGTTTGAGTTGGGAAATCTCATGGAGCTTCATGGCAAAGATAGC
AGTTCTGGAAAAGCTACTGGAGAATAGACAGGTTCTAAAGTTGAATAAGCTGATGGATATGAACCACCAGTCCAAGAATC
TGTT

ORF - retro_nleu_767 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.31 %
Parental protein coverage: 92.05 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalVDPFSKKDWYDVKAPAMFNIRNIGKTLVTRTQGTKIASDGLKGRVFEVSLADLQNDEVAFRKFKLITEDV
VD.FSKKDWYDVKAPAMFN.RNIGKTLVTRT.GTKIASDGLK.RVFEVSLADLQN.EVAFRKFKLIT..V
RetrocopyVDLFSKKDWYDVKAPAMFNVRNIGKTLVTRTEGTKIASDGLKDRVFEVSLADLQNYEVAFRKFKLITKGV
ParentalQ-GKNCLTNFHGMDLTRDKMCSMVKKWQT-MIEAHVDVKTTDGYLLRLFCVGFTKKRNNQIRKTSYAQHQ
Q.GK..L.NFHGM.LT...MCSMVKKWQT.MIEAHVDVKTTDGYLL.LFC..FTKKRNNQI.KTSYAQH.
RetrocopyQ<GKK-LPNFHGMHLTCGRMCSMVKKWQT<MIEAHVDVKTTDGYLLCLFCAAFTKKRNNQIWKTSYAQHK
ParentalQVRQIRKKMMEIMTREVQTNDLKEVVNKLIPDSIGKDIEKACQSIYPLHDVFVRKVKMLKKPKFELGKLM
QV.QI.KKMMEIMTREVQTNDLKEVVNKLIPDSIGKDI.KA.QSIY.L.DVF.RKVKMLKK.KFELG.LM
RetrocopyQVFQIWKKMMEIMTREVQTNDLKEVVNKLIPDSIGKDIDKAYQSIYSLNDVFIRKVKMLKKTKFELGNLM
ParentalELHGEGSSSGKATGDETGAKVERADGYEPPVQESV
ELHG..SSSGKATG..TG.KVE.ADGYEPPVQESV
RetrocopyELHGKDSSSGKATGE*TGSKVE*ADGYEPPVQESV

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_767 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 13 parental genes, and 197 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000022687 retrocopies
Homo sapiens ENSG0000014542540 retrocopies
Gorilla gorilla ENSGGOG000000031822 retrocopies
Myotis lucifugus ENSMLUG000000147888 retrocopies
Macaca mulatta ENSMMUG000000218211 retrocopy
Monodelphis domestica ENSMODG000000009696 retrocopies
Mus musculus ENSMUSG000000280812 retrocopies
Nomascus leucogenys ENSNLEG00000005815 26 retrocopies
Oryctolagus cuniculus ENSOCUG000000070111 retrocopy
Rattus norvegicus ENSRNOG000000118931 retrocopy
Sarcophilus harrisii ENSSHAG000000150882 retrocopies
Sus scrofa ENSSSCG000000090193 retrocopies
Tupaia belangeri ENSTBEG0000000296398 retrocopies
retro_tbel_1005, retro_tbel_11, retro_tbel_1119, retro_tbel_116, retro_tbel_1232, retro_tbel_1318, retro_tbel_133, retro_tbel_137, retro_tbel_1375, retro_tbel_1378, retro_tbel_1383, retro_tbel_1417, retro_tbel_1421, retro_tbel_1509, retro_tbel_1686, retro_tbel_1698, retro_tbel_172, retro_tbel_1720, retro_tbel_1721, retro_tbel_1744, retro_tbel_1814, retro_tbel_1829, retro_tbel_1856, retro_tbel_1896, retro_tbel_1948, retro_tbel_1960, retro_tbel_1999, retro_tbel_206, retro_tbel_2200, retro_tbel_2306, retro_tbel_2463, retro_tbel_2483, retro_tbel_2510, retro_tbel_2626, retro_tbel_2654, retro_tbel_2657, retro_tbel_2745, retro_tbel_2759, retro_tbel_2760, retro_tbel_2764, retro_tbel_281, retro_tbel_2857, retro_tbel_2957, retro_tbel_2959, retro_tbel_3114, retro_tbel_317, retro_tbel_3212, retro_tbel_3255, retro_tbel_3259, retro_tbel_3299, retro_tbel_336, retro_tbel_3372, retro_tbel_3416, retro_tbel_3471, retro_tbel_3486, retro_tbel_3513, retro_tbel_3558, retro_tbel_3613, retro_tbel_3631, retro_tbel_3655, retro_tbel_3705, retro_tbel_373, retro_tbel_375, retro_tbel_3755, retro_tbel_3786, retro_tbel_3815, retro_tbel_3823, retro_tbel_3832, retro_tbel_386, retro_tbel_3882, retro_tbel_39, retro_tbel_3947, retro_tbel_3966, retro_tbel_399, retro_tbel_4116, retro_tbel_4144, retro_tbel_4147, retro_tbel_4211, retro_tbel_4220, retro_tbel_423, retro_tbel_4294, retro_tbel_4304, retro_tbel_4347, retro_tbel_438, retro_tbel_4428, retro_tbel_445, retro_tbel_4579, retro_tbel_598, retro_tbel_619, retro_tbel_623, retro_tbel_671, retro_tbel_859, retro_tbel_90, retro_tbel_912, retro_tbel_92, retro_tbel_928, retro_tbel_956, retro_tbel_973,



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