RetrogeneDB ID:

retro_ttru_1566

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_116422:104533..104839(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SNRPD1
Ensembl ID:ENSTTRG00000002654
Aliases:None
Description:small nuclear ribonucleoprotein D1 polypeptide 16kDa [Source:HGNC Symbol;Acc:11158]


Retrocopy-Parental alignment summary:






>retro_ttru_1566
CAGTTTTTGACGAAAATGAGTCACGACAGTGAAACCATTGAACTGAAGCATGGACACAGATGCATGAAATAATCATGGGG
GTAAATGTCAGCATGAGTACATGTCTCAAATCTCTGAGCGTGATCCTGAAAATCACAGAAACGGCACAGGGGGAGCACTG
AGAGTGCTGGGAATGGCATTTGATATGTTGTCCTGCCAGACAGTTTACCTCTGGGGACACTACTTGTGGACACTGAAACT
CAGGTGAAATCTCAGGAAAGGGAAGCCCTTGTCGGGAGAAACCGAGGCCAGGGAGGAGATGATGGG

ORF - retro_ttru_1566 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 54.72 %
Parental protein coverage: 89.57 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalRFLMKLSHETVTIELKNG-TQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLE-TLSIRG-NNIRYFILP
.FL.K.SH...TIELK.G.TQ.H..I.GV.VSM.T.LK.....LK..E..Q.E..L...G.N.I.Y..LP
RetrocopyQFLTKMSHDSETIELKHG<TQMHEIIMGVNVSMSTCLKSLSVILKITETAQGE<ALRVLG<NGI*YVVLP
ParentalDSLPLDTLLVDVEPKVKSKKREAVAGRGRGRGRGRG
DSLPL.TLLVD.E..VKS..REA..GR.RG.G...G
RetrocopyDSLPLGTLLVDTETQVKSQEREALVGRNRGQGGDDG

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_1566 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_1566 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 13 parental genes, and 24 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000063641 retrocopy
Bos taurus ENSBTAG000000082923 retrocopies
Canis familiaris ENSCAFG000000182471 retrocopy
Dasypus novemcinctus ENSDNOG000000187734 retrocopies
Felis catus ENSFCAG000000123521 retrocopy
Macaca mulatta ENSMMUG000000039922 retrocopies
Mustela putorius furoENSMPUG000000055671 retrocopy
Oryctolagus cuniculus ENSOCUG000000237611 retrocopy
Pongo abelii ENSPPYG000000258743 retrocopies
Pan troglodytes ENSPTRG000000099092 retrocopies
Pteropus vampyrus ENSPVAG000000055111 retrocopy
Rattus norvegicus ENSRNOG000000137142 retrocopies
Tursiops truncatus ENSTTRG00000002654 2 retrocopies
retro_ttru_1566 , retro_ttru_1890,



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