RetrogeneDB ID:

retro_ttru_492

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_2472:23046..23584(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:OSTF1
Ensembl ID:ENSTTRG00000003081
Aliases:None
Description:osteoclast stimulating factor 1 [Source:HGNC Symbol;Acc:8510]


Retrocopy-Parental alignment summary:






>retro_ttru_492
CCAGATGAATTGTACTTTGAAGAAGGTGATATTATCTACATTACTGACACGAGTGATACCAGTTGGTGGAAAGGCACCTC
CAAAGGCAGGACGGGACTGATCCCAAGCAACTATGTGGCCGGGCAGGTAGAATCCATTGACAATCCATTCCACGAAGCTG
CAAAAAGAGGCAACTTGAGCTGGTTGAGAGAGTGCTTGGACAACCGAGTCGGTGTTAATGGCTTGGACAAAGCTGGAAGC
ACTGCCCTGTACTGGGCTTGTCGTGGGGGGTCACAGAGATACAGTGGAAATGCTATTTACTCAACCAAACATTGAACTGA
ACCAACAAAACAAGTTGGGAGACACAGCTTTGCATGCTGCTGCCTAGAAGGGTTATGCAGGTATTGTCCAGTTGCTTCTG
GCAAAAGTTGCTAGAACAGACTTAAGAAACAATGAGAAGAAACTGGCCCTGGACATGGCTAATGCTGCCTGTGCATCTCT
CCTGAAAAAGCAACAGGGAATAGATGCAGTCCGAACATTAAGCAATGCCGAGGACTAT

ORF - retro_ttru_492 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.16 %
Parental protein coverage: 70.04 %
Number of stop codons detected: 1
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalPDELYFEEGDIIYITDMSDTNWWKGTSKGRTGLIPSNYVAEQAESIDNPLHEAAKRGNLSWLRECLDNRV
PDELYFEEGDIIYITD.SDT.WWKGTSKGRTGLIPSNYVA.Q.ESIDNP.HEAAKRGNLSWLRECLDNRV
RetrocopyPDELYFEEGDIIYITDTSDTSWWKGTSKGRTGLIPSNYVAGQVESIDNPFHEAAKRGNLSWLRECLDNRV
ParentalGVNGLDKAGSTALYWACH-GGHKDIVEVLFTQPNIELNQQNKLGDTALHAAAWKGYADIVQLLLAKGART
GVNGLDKAGSTALYWAC..GGH.D.VE.LFTQPNIELNQQNKLGDTALHAAA.KGYA.IVQLLLAK.ART
RetrocopyGVNGLDKAGSTALYWACR>GGHRDTVEMLFTQPNIELNQQNKLGDTALHAAA*KGYAGIVQLLLAKVART
ParentalDLRNNEKKLALDMATNAACASLLKKKQGTDAVRTLSNAEDY
DLRNNEKKLALDMA.NAACASLLKK.QG.DAVRTLSNAEDY
RetrocopyDLRNNEKKLALDMA-NAACASLLKKQQGIDAVRTLSNAEDY

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






RNA-Seq - click to see more details

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tursiops truncatus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ttru_492 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_492 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 15 parental genes, and 17 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000128081 retrocopy
retro_cjac_3249,
Cavia porcellus ENSCPOG000000072261 retrocopy
retro_cpor_1049,
Dipodomys ordii ENSDORG000000029331 retrocopy
retro_dord_698,
Erinaceus europaeus ENSEEUG000000083202 retrocopies
retro_eeur_545, retro_eeur_683,
Felis catus ENSFCAG000000223741 retrocopy
retro_fcat_1869,
Homo sapiens ENSG000001349961 retrocopy
retro_hsap_1058,
Gorilla gorilla ENSGGOG000000119201 retrocopy
retro_ggor_836,
Macaca mulatta ENSMMUG000000104011 retrocopy
retro_mmul_836,
Nomascus leucogenys ENSNLEG000000018541 retrocopy
retro_nleu_2502,
Otolemur garnettii ENSOGAG000000026031 retrocopy
retro_ogar_2962,
Pongo abelii ENSPPYG000000193001 retrocopy
retro_pabe_883,
Pan troglodytes ENSPTRG000000210311 retrocopy
retro_ptro_720,
Rattus norvegicus ENSRNOG000000121562 retrocopies
retro_rnor_936, retro_rnor_937,
Sus scrofa ENSSSCG000000052731 retrocopy
retro_sscr_979,
Tursiops truncatus ENSTTRG00000003081 1 retrocopy
retro_ttru_492 ,


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