RetrogeneDB ID:

retro_ttru_1016

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_100057:42492..44336(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PHKB
Ensembl ID:ENSTTRG00000010397
Aliases:None
Description:phosphorylase kinase, beta [Source:HGNC Symbol;Acc:8927]


Retrocopy-Parental alignment summary:






>retro_ttru_1016
CTGTGGGATAAATTGGGTCACTAGTACAGAATTGTCAAGTCAACACTGCTGCTGTACCGAAGCCCAACTGCAGGTCTCTT
TCCCACAAAAACATGTGGTGATGATCAGGAGGCCAAGATCCATGACAGTCTATACTGCCCTGCTGTGCCCTGGGCTTTGG
CTCTTGTATCAGTCGCATTGATGATGACAAGGGAAGGACCCGTGAGTTGGAGCACTTGGCTATAAAATGTATGAGAGGAA
TTGTCTACTGCTATATGCGTCAGGCCGATAAGGTCCAGCAGTTTAAGCAGGATCCGTGCCCAACACGTTGTCTTCACTCT
GTTCTCAATGTACATACAGGGATGAGATTCTCTCCTATCAGGATTATGGTCATCTTCAGATAAATGCAGCATCACTCTAT
CTCCTTTACCTTGTGGAAATGATTTCCTCAGGACTGCAGATTATCTATAACACTGATGAGGTCTCTTTCATTCAGAACCT
TGTATTTTGTGTGGAAAGAGTTTACTGTGTGCCTGACTTTGGTGTCTGGGAGAGAGGAAGCGAGTATAATAATGGCAGCA
CGGAGCTGCATTCGAGCTCTGTTGTCTTAGCAAAAGCAGCTGTAGAAGCAATTAATGGAGTCAACCTCTTTGGCAACCAG
GCCTGTTCTTGGTCGGTTATATTTGTGGATCTCGATGCTCACAATCGCAACTGGCAAACTTTGTGCTCACTGTTACCCAG
AGAATCAAGATCTCATAACACAGATGTTGCCCTGCTCCCCTGCATCAGTTATCCTACGTTTGCCTTGGACGATGAGGTTC
TGTTTAGCCAGACACTCAATAAAGTGGTTAGAAAATTAAAAGGGAGATATGGATTTAAGCATTTCTTGAGAGATGGGTAT
AGAACATCATTGGAAGATCCTAATAGACGCTACTGCAGACCAGCTGAAATTAAGCTGTTTGATGGCATTGAATGTGAATT
TCCCATATTTTTCCTTTACATGATGATTGATGGTGTTTTTAGAGGCAATCCCAAGCAAGTAAAAGAATATCAGGATCTTC
TGACTCCAGTGCTTCATCAGACCACAGAAGGTTATCCTGTCATACCAAAGTACTACTGTGTTCCAGCTGATTTTGTAGAA
TATGAAAAAAGAAACCCTGGTAGTCAGAAGGGATTTCCTAGCAACTGTGGCCGTGATGGAAAACTATTACTTGGGGGACA
AGCCCTTTATGTCATCACAAAACTCCTGGCTGATGAATTAATTAGTCCTAAAGACATTGATCCTGTTCAGTGTTATGTCC
CACTACAGAATCAATGTAATGTAAGCATGAGGTTTTCCAATCAGGGCCCACTGGAAAATGATTTGGTTGTTTATGTAGCG
CTTATAGCAGAAAGCCAATGCCTTCCAGTTTTCCTCAACACATATGGTATTCAGACTCAAACTCCTCAACAGGTAGAACC
CATTCAGATCTGGGCCCAGCAGGAGCTTGTGAAAGCTTATTTCCATCTGGGGGTCAATGAAAAATCAGGACTCTGCGGAA
GGCCAGATAGGCCCATTGGCTGCCTCCATACATCAAAGATTTATTGCATTCTAGGAAAGACTGTGGTTTGTTACCCTATC
ATCTTTGACCTAAGTGATTTCTAAATGTCTCAAGATGTTTTACTGCTGGTAGATGACATAAAGAATGCACTACAGTTTAT
TAAGCAATACTGGAAAATGCGTGGGCATCCACTTTTCCTTTGTTCTCATCCAGGGAGACAGTATAAGAGGTAGCCAATTC
AATCCCATATTAGATGTGCTGGCCAGCTTTTAGAAAGGAGTGGCTGGAGGAGTTAAAGTTCACGTTGATCATCTACAGAC
ACTA

ORF - retro_ttru_1016 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.32 %
Parental protein coverage: 56.42 %
Number of stop codons detected: 3
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalLWDKLDHYYRIVKSTLLLYQSPTTGLFPTKTCGDDQKAKIHDSLYCAAGAWALALA-YRRIDDDKGRTHE
LWDKL.H.YRIVKSTLLLY.SPT.GLFPTKTCGDDQ.AKIHDSLYC.A..WALAL....RIDDDKGRT.E
RetrocopyLWDKLGH*YRIVKSTLLLYRSPTAGLFPTKTCGDDQEAKIHDSLYCPAVPWALALV<ISRIDDDKGRTRE
ParentalLEHSAIKCMRGILYCYMRQADKVQQFKQDPRSTTCLHSVFNVHTG-DEILSYEEYGHLQINTVSLYLLYL
LEH.AIKCMRGI.YCYMRQADKVQQFKQDP..T.CLHSV.NVHTG.DEILSY..YGHLQIN..SLYLLYL
RetrocopyLEHLAIKCMRGIVYCYMRQADKVQQFKQDPCPTRCLHSVLNVHTG<DEILSYQDYGHLQINAASLYLLYL
ParentalVEMISSGLQIIYNTDEVSFIQNLVFCVERVYRVPDFGVWERGSKYNNGSTELHSSSVGLAKAALEAINGF
VEMISSGLQIIYNTDEVSFIQNLVFCVERVY.VPDFGVWERGS.YNNGSTELHSSSV.LAKAA.EAING.
RetrocopyVEMISSGLQIIYNTDEVSFIQNLVFCVERVYCVPDFGVWERGSEYNNGSTELHSSSVVLAKAAVEAINGV
ParentalNLFGNQGCSWSVIFVDLDAHNRNRQTLCSLLPRESRSHNTDAALLPCISYPAFALDDEVLFNQTLDKVVR
NLFGNQ.CSWSVIFVDLDAHNRN.QTLCSLLPRESRSHNTD.ALLPCISYP.FALDDEVLF.QTL.KVVR
RetrocopyNLFGNQACSWSVIFVDLDAHNRNWQTLCSLLPRESRSHNTDVALLPCISYPTFALDDEVLFSQTLNKVVR
ParentalKLKGKYGFKRFLRDGYRTSLEDPKRRYYRPAEIKLFDGIECEFPIFFLYMMIDGVFRGNPKQVKEYQDLL
KLKG.YGFK.FLRDGYRTSLEDP.RRY.RPAEIKLFDGIECEFPIFFLYMMIDGVFRGNPKQVKEYQDLL
RetrocopyKLKGRYGFKHFLRDGYRTSLEDPNRRYCRPAEIKLFDGIECEFPIFFLYMMIDGVFRGNPKQVKEYQDLL
ParentalTPVLHQTTEGYPVIPKYYFVPADFVEYEKRNPGSQKRFPSNCGRDGKLFLWGQALYVIAKLLADELISPK
TPVLHQTTEGYPVIPKYY.VPADFVEYEKRNPGSQK.FPSNCGRDGKL.L.GQALYVI.KLLADELISPK
RetrocopyTPVLHQTTEGYPVIPKYYCVPADFVEYEKRNPGSQKGFPSNCGRDGKLLLGGQALYVITKLLADELISPK
ParentalDIDPVQRYVPLQNQRNVSMRFSNQGPLENDLVVYVALIAESQRLQVFLNTYGIQTQTPQQVEPIQIWAQQ
DIDPVQ.YVPLQNQ.NVSMRFSNQGPLENDLVVYVALIAESQ.L.VFLNTYGIQTQTPQQVEPIQIWAQQ
RetrocopyDIDPVQCYVPLQNQCNVSMRFSNQGPLENDLVVYVALIAESQCLPVFLNTYGIQTQTPQQVEPIQIWAQQ
ParentalELVKAYFHLGINEKLGLCGRPDRPIGCLGTSKIYRILGKTVVCYPIIFDLSDFYMSQDVLLLIDDIKNAL
ELVKAYFHLG.NEK.GLCGRPDRPIGCL.TSKIY.ILGKTVVCYPIIFDLSDF.MSQDVLLL.DDIKNAL
RetrocopyELVKAYFHLGVNEKSGLCGRPDRPIGCLHTSKIYCILGKTVVCYPIIFDLSDF*MSQDVLLLVDDIKNAL
ParentalQFIKQYWKMHGHPLFL-VLIREDNIRGSRFNPILDMLAAFKNGVVGGVKVHVDRLQTL
QFIKQYWKM.GHPLFL.VLI..D.IRGS.FNPILD.LA.F..GV.GGVKVHVD.LQTL
RetrocopyQFIKQYWKMRGHPLFL>VLIQGDSIRGSQFNPILDVLASF*KGVAGGVKVHVDHLQTL

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_1016 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_1016 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 1 parental gene, and 2 retrocopies.

Species Parental gene accession Retrocopies number
Tursiops truncatus ENSTTRG00000010397 2 retrocopies
retro_ttru_1016 , retro_ttru_1037,


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