RetrogeneDB ID:

retro_ttru_1014

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_999:49172..49844(-)
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:ENSTTRG00000013094
Aliases:None
Description:ribosomal protein S3A [Source:HGNC Symbol;Acc:10421]


Retrocopy-Parental alignment summary:






>retro_ttru_1014
AGAAATATTGGGAAAACACTAATCACGAGAACTCAAGCAACCAAAATTGCATCTGATGACCTCAAGGGTCATGTTTTTGA
AGTGAGCCTTGCTGATCTGCAGAGTGATGAAGTTGCATTTAGAAAATTCAAGCTAATTATTGAGGATGTTCAGGGCAAAA
ACTGCCTAACTAATTTCCATTGCATGGGTCTTACCTGTGACAAAATGTGCTCCATGGTCAAAAAATGGCAGAACATGATT
GAAGTTCATGTTGATATGAAGACTACCCATGGTTATTTGCTTCATCTATTCTGTGTGCATTTTACTAAAAAATGCAACAA
TCAGATTCAGAAGAACTCCTATGCCCAGCACCGACAGTTCCTCCTAATCTGGAAGAAGATGATGGAAATCATAACCCAAG
AGGAGCAGACAAATAAATGACTTGAAAGAGGTAGTCAATAAATTGATTCCAGACAGCACTGGAAAAGGCATAGGAAAAGC
TTGCCAATATATTTTTCTGCTCCATGATTCTTTGTTAGAAAAGTAAAAATGCTGAAGAAGCCCAAATTTGAATTGGGAAA
ACTCTGAAGCTTCATGGTGAAGGTGATAGTTCTTGGAAAAGCTACTGGAGATGAGACAGGTGTTAAGGTCGAATGAGCTG
ATGGATATGAGTCACCAGTCCAAGAATCTGTT

ORF - retro_ttru_1014 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.51 %
Parental protein coverage: 91.77 %
Number of stop codons detected: 1
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalRNIGKTLVTRTQGTKIASDGLKGRVFEVSLADLQNDEVAFRKFKLITEDVQGKNCLTNFHGMDLTRDKMC
RNIGKTL.TRTQ.TKIASD.LKG.VFEVSLADLQ.DEVAFRKFKLI.EDVQGKNCLTNFH.M.LT.DKMC
RetrocopyRNIGKTLITRTQATKIASDDLKGHVFEVSLADLQSDEVAFRKFKLIIEDVQGKNCLTNFHCMGLTCDKMC
ParentalSMVKKWQTMIEAHVDVKTTDGYLLRLFCVGFTKKRNNQIRKTSYAQHQQVRQI-RKKMMEIMTREV-QTN
SMVKKWQ.MIE.HVD.KTT.GYLL.LFCV.FTKK.NNQI.K.SYAQH.Q...I..K.M..I...E..Q.N
RetrocopySMVKKWQNMIEVHVDMKTTHGYLLHLFCVHFTKKCNNQIQKNSYAQHRQFLLIWKKMMEIITQEEQ>QIN
ParentalDLKEVVNKLIPDSIGKDIEKACQSIYPLHD-VFVRKVKMLKKPKFELGKL-MELHGEGSSS-GKATGDET
DLKEVVNKLIPDS.GK.I.KACQ.I..LHD..FVRKVKMLKKPKFELGKL...LHGEG.SS.GKATGDET
RetrocopyDLKEVVNKLIPDSTGKGIGKACQYIFLLHD<FFVRKVKMLKKPKFELGKL<LKLHGEGDSS>GKATGDET
ParentalGAKVERADGYEPPVQESV
G.KVE.ADGYE.PVQESV
RetrocopyGVKVE*ADGYESPVQESV

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Tursiops truncatus was not studied using RNA-Seq expression data.
Tursiops truncatus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ttru_1014 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_1014 was not experimentally validated.

Retrocopy orthology:
Tursiops truncatus 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 7 parental genes, and 56 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG0000000723834 retrocopies
Macaca mulatta ENSMMUG000000218211 retrocopy
Monodelphis domestica ENSMODG000000009696 retrocopies
Mus musculus ENSMUSG000000280812 retrocopies
Rattus norvegicus ENSRNOG000000118931 retrocopy
Sarcophilus harrisii ENSSHAG000000150882 retrocopies
Tursiops truncatus ENSTTRG00000013094 10 retrocopies



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