RetrogeneDB ID:

retro_ttru_8

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_115733:82666..84016(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSTTRG00000009799
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:DCAF12
Ensembl ID:ENSTTRG00000010591
Aliases:None
Description:DDB1 and CUL4 associated factor 12 [Source:HGNC Symbol;Acc:19911]


Retrocopy-Parental alignment summary:






>retro_ttru_8
ATGGCGAGGCAAACAGGTAGCAGGAAGCGGAAAGCGCCGGCGCTCGCGGCGGGTGGGGACGGGCCGCTGCCTCCCAAGAA
GCCCAAGCGGCCGGCGGCGCTGCGCTCGCTGCTGCACTACCTGAAGGGCCGCGAGGTGGGGGCGCGGGGCCGCGCCGGGC
TCCCGGGCTTCGAGGGCAAGCTGCGCGGCTACGCGGTGCGGAAGCTGCCCGAGCTGCTGAGGGAGCGCGAGCTGGCGCTG
GGCACCCTCAACAAGGTGTTCGCGTCGCAGTGGCTGAACGCCAGGCAGGTGGTGTGCGGCACCAAGTGCAACACGCTCTT
CGTGGTGGACGTGCAGTCGGGCCACATCACGCGCATCCCCCTGATGCGGGACCGCGGGCCCGCGTCGGCCCGCGCCCAGC
CGAACTGCGGCATCCACGCCATCCAGCTGAATCCCTCCAAGACGCTTCTGGCCACCGGGGGCGAGAACCCCAACAGCCTG
GCCGTCTACCAGCTGCCCACGCTGGACCCCGTGTGCCTGGGCGACCGCCACGGCCACAAGGACTGGATCTTCGCCATCGC
CTGGATGAGCGACACGGTGGCCGTGAGTGGCTCCCGCGACGGCACCGTGGCGCTCTGGAAGATGGACCCCGACATGTTCC
ACGGCAGCATCGCCTGGCACAACGACGCGGGCCTCCCCCTGTACGCCCACATCCGTCCCAGGGACGTGGAGACCATCCCC
AGGGCCAGCACCAACCCCAGTAACCGCAAGGTGCGGGCCCTGGCCTTCAGCGGCAAGAACCAGGAGCTGGGAGCCGTGTC
CCTGGACGGCTACTTCCACCTGTGGAAAGCCCAGAGCAACCTGTCCAGGCTGCTGTCCATCAGGCTGCCCTACTGCCGAG
AGAACGTGTGCCTGACCTACTGCGACGAGTTGTCCCTGTACGCGGTGGGCTCCCAGTCCCACGTCTCCTTCCTGGATCCG
CGGCAGCGCCAGCAGAACATCCGGCCCCTGTGCTCCCGAGAGGGCGGCACGGGTGTGCGCTCCCTGAGCTTCTACCAGCA
CATCGTCACCGTGGGCACGGGCCACGGTTCCCTGCTCTTCTATGACATCCGCGCGCAAACGTTCCTGGAGGAGAGGGCCT
CGGCCAGCCCGCACTTCCCTCCGGGGCCCGCAGGGAGGAAGCTCAAGCTCACCTGTGGCAGAGGCTGGCTCAACCACGAT
GACCTGTGGGTGAACTACTTCGGTGGCATCGGCGAGTTCCCCAACGCGCTCTACACGCACTGCTACAACTGGCCCGAGAT
GAAGCTCTTCGTCGCTGGGGGGCCTCTCCCTTCCGGCCTCCACGGGAACTATGCCGGCCTCTGGAGCTAA

ORF - retro_ttru_8 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 65.8 %
Parental protein coverage: 92.49 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalKRKRLPPVKRSLVYYLKNREVRLQNETN---YSRVLHGYAAQQLPSLLKEREFHLGTLNKVFASQWLNHR
K....P...RSL..YLK.REV..............L.GYA...LP.LL.ERE..LGTLNKVFASQWLN.R
RetrocopyKKPKRPAALRSLLHYLKGREVGARGRAGLPGFEGKLRGYAVRKLPELLRERELALGTLNKVFASQWLNAR
ParentalQVVCGTKCNTLFVVDVQTSQITKIPILKDREPGGV-TQQGCGIHAIELNPSRTLLATGGDNPNSLAIYRL
QVVCGTKCNTLFVVDVQ...IT.IP...DR.P.....Q..CGIHAI.LNPS.TLLATGG.NPNSLA.Y.L
RetrocopyQVVCGTKCNTLFVVDVQSGHITRIPLMRDRGPASARAQPNCGIHAIQLNPSKTLLATGGENPNSLAVYQL
ParentalPTLDPVCVGD-DGHKDWIFSIAWISDTMAVSGSRDGSMGLWEVTDDVLTKSDARHNVSQVPVYAHITHKA
PTLDPVC.GD..GHKDWIF.IAW.SDT.AVSGSRDG...LW....D....S.A.HN....P.YAHI....
RetrocopyPTLDPVCLGDRHGHKDWIFAIAWMSDTVAVSGSRDGTVALWKMDPDMFHGSIAWHNDAGLPLYAHIRPRD
ParentalLKDIPKEDTNPDNCKVRALAFNNKNKELGAVSLDGYFHLWKAENTLSKLLSTKLPYCRENVCLAYGSEWS
...IP...TNP.N.KVRALAF..KN.ELGAVSLDGYFHLWKA...LS.LLS..LPYCRENVCL.Y..E.S
RetrocopyVETIPRASTNPSNRKVRALAFSGKNQELGAVSLDGYFHLWKAQSNLSRLLSIRLPYCRENVCLTYCDELS
ParentalVYAVGSQAHVSFLDPRQPSYNVKSVCSRERGSGIRSVSFYEHIITVGTGQGSLLFYDIRAQRFLEERLSA
.YAVGSQ.HVSFLDPRQ...N....CSRE.G.G.RS.SFY.HI.TVGTG.GSLLFYDIRAQ.FLEER.SA
RetrocopyLYAVGSQSHVSFLDPRQRQQNIRPLCSREGGTGVRSLSFYQHIVTVGTGHGSLLFYDIRAQTFLEERASA
ParentalCYGSKPRLAGENLKLTTGRGWLNHDETWRSYFSDTDSFPNAVYTHCYDSSGTKLFVAGGPLPSGLHGNYA
.....P..AG..LKLT.GRGWLNHD..W..YF.....FPNA.YTHCY.....KLFVAGGPLPSGLHGNYA
RetrocopySPHFPPGPAGRKLKLTCGRGWLNHDDLWVNYFGGIGEFPNALYTHCYNWPEMKLFVAGGPLPSGLHGNYA
ParentalGLWS
GLWS
RetrocopyGLWS

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_8 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_8 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 19 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000003091 retrocopy
retro_amel_73,
Bos taurus ENSBTAG000000215733 retrocopies
retro_btau_1794, retro_btau_1795, retro_btau_1796,
Equus caballus ENSECAG000000230642 retrocopies
retro_ecab_1128, retro_ecab_1129,
Erinaceus europaeus ENSEEUG000000132791 retrocopy
retro_eeur_403,
Microcebus murinus ENSMICG000000058811 retrocopy
retro_mmur_14,
Macaca mulatta ENSMMUG000000174581 retrocopy
retro_mmul_202,
Nomascus leucogenys ENSNLEG000000049961 retrocopy
retro_nleu_6,
Otolemur garnettii ENSOGAG000000157991 retrocopy
retro_ogar_237,
Ochotona princeps ENSOPRG000000012812 retrocopies
retro_opri_1178, retro_opri_470,
Pongo abelii ENSPPYG000000191271 retrocopy
retro_pabe_64,
Pteropus vampyrus ENSPVAG000000086541 retrocopy
retro_pvam_16,
Sus scrofa ENSSSCG000000109861 retrocopy
retro_sscr_17,
Ictidomys tridecemlineatus ENSSTOG000000069041 retrocopy
retro_itri_168,
Tarsius syrichta ENSTSYG000000143941 retrocopy
retro_tsyr_1965,
Tursiops truncatus ENSTTRG00000010591 1 retrocopy
retro_ttru_8 ,


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