RetrogeneDB ID:

retro_ttru_1356

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_111332:11004..11495(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL12
Ensembl ID:ENSTTRG00000015700
Aliases:None
Description:ribosomal protein L12 [Source:HGNC Symbol;Acc:10302]


Retrocopy-Parental alignment summary:






>retro_ttru_1356
GTGCCACCTAAGTTTGACCTCAATGAGATCAAAGTCGTGTAGCTGAGGTGCACTGGTGGGGAAGTTGGTGCCACGTCTAC
CCTGGCCCCCAAGATCGGCCCCCTGGGTCTGTCTCCAAACAACATTGGTGATGACATCGCCAAGGCAACTGGTGATTGGA
AGGGTATGAGGATTACAGTGAAACTGACAATTCAGAACAGACAGGCCCAGATTGAGGTGGTATCTTCTGCCTCTGCCCTG
ATCATCAAAGCCCTCAAGGAACCGTCAGGAGACAAAAAGAAGCAGAAAAACATTAAACACAGTGGAAACATCACTTTTGA
TGAGATTATCAACATTGCCTGACAGATGCGGCATCGATCTTTAGCTAGAGAACTCTCACCATTAAAGAGATGCTGGGGAC
CACCCAGTCTGTGGGCTACAGTGTCCATGGCCGCCACCCTCACGACATCATAGATGACATCAACAGTGGTGCAGTGGAAT
GCCCAGCTAGT

ORF - retro_ttru_1356 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.34 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMPPKFDPNEIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATGDWKGLRITVKLTIQNRQAQ
.PPKFD.NEIKVV.LRCTGGEVGATS.LAPKIGPLGLSP...GDDIAKATGDWKG.RITVKLTIQNRQAQ
RetrocopyVPPKFDLNEIKVV*LRCTGGEVGATSTLAPKIGPLGLSPNNIGDDIAKATGDWKGMRITVKLTIQNRQAQ
ParentalIEVVPSASALIIKALKEPPRDRKKQKNIKHSGNITFDEIVSIARQMRHRSLARELSGTIKEILG-TAQSV
IEVV.SASALIIKALKEP..D.KKQKNIKHSGNITFDEI..IA.QMRHRSLARELS...K...G.T.QSV
RetrocopyIEVVSSASALIIKALKEPSGDKKKQKNIKHSGNITFDEIINIA*QMRHRSLARELS-PLKRCWG<TTQSV
ParentalGCNVDGRHPHDIIDDINSGAVECPAS
G..V.GRHPHDIIDDINSGAVECPAS
RetrocopyGYSVHGRHPHDIIDDINSGAVECPAS

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_1356 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_1356 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 8 parental genes, and 104 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG0000000841248 retrocopies
Latimeria chalumnae ENSLACG000000153733 retrocopies
Loxodonta africana ENSLAFG0000001766910 retrocopies
Macropus eugenii ENSMEUG0000000738012 retrocopies
Monodelphis domestica ENSMODG000000045719 retrocopies
Procavia capensis ENSPCAG000000074693 retrocopies
Rattus norvegicus ENSRNOG000000162204 retrocopies
Tursiops truncatus ENSTTRG00000015700 15 retrocopies



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