RetrogeneDB ID:

retro_nleu_1673

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397303.1:6637000..6638174(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL3L
Ensembl ID:ENSNLEG00000008850
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_1673
ATGTCTCACGGAAGGTTCTCTGCTCCCAGACATGGGTCCCTCGGCTGCCTGCCTCAGAAGCGCAGCGGGAAGCATCATGG
GAAGGTGAAGAGCTTTCCTAAGGATGACCCTTCCAAGCTGGTCCACCACACAGCCTTCCTGGGATACAAGGCTGGCATGA
CCAACATTGTGCGGGAAGTCGACAGGCCAGGATCCAAGGTGAAGAAGAAGGAAGTGGTAGAGGCTGTGACCATTGTGGAG
ACACCACCCGTGGTGGTTGTGGGCACTGTGGGCTACGTGGAAACCCCTCGAGGCCTCCAGACCTTCAAGACTGTCTTCAC
TGAGCACATCAGCAATGCGTGCAAGAGATATTTCTATAAAAACTGGCATAAATCTAAGAAGAAGGCCTTTACCAAGTACT
GCAAGAAATGTCAGGATGAGGATGGCAAGAAGCAGCTGGAGAAGGACTTCAGCAGCATGAAGAGGTACCGCCAAGTCATC
TGCATCATTGCCTACACCCAGATGTGCCTGCTTCCTCTGCGCCAGAGGAAGGCCCACCTGACAGAGATCCAGGTAAAGGG
AGGCACCGTGGCCAAGAAGCTGGACTGGGCCCACGAGAGGCTCGAGCAGCAGGTACCTGTGAAAAAAGTGTTTGGGCAGG
ACGAGATGATCGACGTCATCGGGTTGACCAAGGGCAACGGCTACAAAGGGGTCACCAGTCGTTGGCACACCAAGAAGCTG
CCCCGCAAGACCCACCGAGGCCTGTGCAAGGTAGCCTGTATTGGGGCACAGCATCCTGCCCCTGTGGCCTTCCCTGTGGC
ACGCGTTTGGCAGAAAGGCTACCATCACCGCACTGAGATCAACAAGAAGATCTATAAGATCAGACAGGGATACTTTATCA
AGGACAGCAAACTGATCAAGAACAATGCCTCCACTGACTATGACCTGTCTGACAAGCCACCCTCTGGGTGCCTTTGTCCA
CTATGAAGTGACCAATGACTTTGTCATGCTGAAAGACTGTGTGGTGGACACCAAGAAGCAAGTGCTCGCCCTTCACAAGT
CCTTGCCAGTGCCAACCAAACGGCGGGCTCTGGAGAAGACTGACCTTAAGTTCATTGACACCACCTCCAAGTTTGGCCAT
GGCTGCTTCCAAACCATGAAGGAGAGGACAGCATTCATGGCACCACTCAAGAAA

ORF - retro_nleu_1673 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 67.34 %
Parental protein coverage: 96.81 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMSHRKFSAPRHGHLGFLPHKRSRRHRGKVKTWPRDDPSQPVHLTAFLGYKAGMTHTLREVHRPGLKISKR
MSH..FSAPRHG.LG.LP.KRS..H.GKVK..P.DDPS..VH.TAFLGYKAGMT...REV.RPG.K..K.
RetrocopyMSHGRFSAPRHGSLGCLPQKRSGKHHGKVKSFPKDDPSKLVHHTAFLGYKAGMTNIVREVDRPGSKVKKK
ParentalEEVEAVTIVETPPVVVVGVVGYVATPRGLRSFKTIFAEHLSDECRRRFYKDWHKSKKKAFTKACKRWRDT
E.VEAVTIVETPPVVVVG.VGYV.TPRGL..FKT.F.EH.S..C.R.FYK.WHKSKKKAFTK.CK...D.
RetrocopyEVVEAVTIVETPPVVVVGTVGYVETPRGLQTFKTVFTEHISNACKRYFYKNWHKSKKKAFTKYCKKCQDE
ParentalDGKKQLQKDFAAMKKYCKVIRVIVHTQMKLLPFRQKKAHIMEIQLNGGTVAEKVAWAQARLEKQVPVHSV
DGKKQL.KDF..MK.Y..VI..I..TQM.LLP.RQ.KAH..EIQ..GGTVA.K..WA..RLE.QVPV..V
RetrocopyDGKKQLEKDFSSMKRYRQVICIIAYTQMCLLPLRQRKAHLTEIQVKGGTVAKKLDWAHERLEQQVPVKKV
ParentalFSQSEVIDVIAVTKGRGVKGVTSRWHTKKLPRKTHKGLRKVACIGAWHPARVGCSIARAGQKGYHHRTEL
F.Q.E.IDVI..TKG.G.KGVTSRWHTKKLPRKTH.GL.KVACIGA.HPA.V....AR..QKGYHHRTE.
RetrocopyFGQDEMIDVIGLTKGNGYKGVTSRWHTKKLPRKTHRGLCKVACIGAQHPAPVAFPVARVWQKGYHHRTEI
ParentalNKKIYRIGRGPHMEDGKLVKNNASTSYDVTAKSITPLG-GFPHYGEVNNDFVMLKGCIAGTKKRVITLRK
NKKIY.I..G....D.KL.KNNAST.YD...K...P.G..F.HY.EV.NDFVMLK.C...TKK.V..L.K
RetrocopyNKKIYKIRQGYFIKDSKLIKNNASTDYDLSDK--PPSG>AFVHY-EVTNDFVMLKDCVVDTKKQVLALHK
ParentalSLLVHHSRQAVENIELKFIDTTSKFGHGRFQTAQEKRAFMGPQKK
SL.V...R.A.E...LKFIDTTSKFGHG.FQT..E..AFM.P.KK
RetrocopySLPVPTKRRALEKTDLKFIDTTSKFGHGCFQTMKERTAFMAPLKK

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_1673 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 6 parental genes, and 27 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000084891 retrocopy
Nomascus leucogenys ENSNLEG00000008850 9 retrocopies
Nomascus leucogenys ENSNLEG000000152342 retrocopies
Pongo abelii ENSPPYG000000069731 retrocopy
Pan troglodytes ENSPTRG0000000761712 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000129212 retrocopies



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