RetrogeneDB ID:

retro_ttru_1050

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_101215:48949..50044(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSTTRG00000004689
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ttru_1050
TACCTCAAGGCTGCCCTGTATGTGGGTGACTTGGACCCAGATGTCACCGAGGACATGTTATATAAAAAGTTCAGGCCTGC
TGGCCCTCTTCGCTTCACCCGAATCTGCCGTGACCCGGTGACCCGCAGCCCCCTGGGCTATGGTTATGTTAACTTCCGCT
TTCCTGCGGATGCTGAGTGGGCCTTGAACACCATGAATTTTGATTTGATTAACGGCAAACCTTTCCGCCTAATGTGGTCT
CAGCCAGATGACCGCTTAAGAAAGTCTGGAGTTGGAAATATATTCATCAAAAACCTGGACAAATCCATAGACAATAGGGC
CCTTTTTTATCTGTTTTCTGCTTTTGGGAGCATTCTCTCCTGCAAGGTAGTATGCGATGACAACGGCTCTAAGGGTTATG
CCTATGTGCACTTTGACAGCCTGGCCGCTGCCAATAGGGCCATCTGGCACATGAATGGAGTGCGGCTCAACAACCGCCAG
GTGTACGTTGGCCGATTCAAATTTCCGGAAGAGCGGGCAGCTGAAGTTAGAACTAGGGATAGAGCGACTTTCACCAATGT
TTTCGTTAAAAACTTTGGAGATGACATGGATGACGACAAACTGAAGGAACTTTTCAGTGAATACGGGCCAACTGAGAGTG
TTAAGGTAATAAGAGATGCCAGTGGGAAATCGAAAGGCTTTGGATTTGTGAGATACGAGACACACGAGGCTGCCCAAAAG
GCTGTGTTAGACCTGCATGGAAAGTCCATCGATGGGAAAGTCCTCTATGTAGGGCGAGCACAGAAGAAAATTGAACGCCT
GGCCGAGTTAAGGCGAAGATTTGAGCGGCTGAGATTAAAAGAAAAAAGTCGGCCTCCAGGGGTGCCTATCTATATTAAGA
ACCTAGACGAGACCATCGATGATGAAAAACTGAAGGAGGAATTTTCTTCCTTTGGATCAATTAGCCGGGCCAAAGTGATG
GTGGAAGTGGGGCAAGGCAAAGGGTTTGGTGTTGTCTGCTTCTCCTCTTTTGAAGAGGCTACCAAAGCAGTAGATGAGAT
GAATGGTCGCATAGTGGGCTCCAAGCCTCTGCATGTCACGCTGGGCCAGGCCAGG

ORF - retro_ttru_1050 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.93 %
Parental protein coverage: 58.71 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVI
Y..A.LYVGDL.PDVTE.MLY.KF.PAGP....R.CRD..TR..LGY.YVNF..PADAE.AL.TMNFD.I
RetrocopyYLKAALYVGDLDPDVTEDMLYKKFRPAGPLRFTRICRDPVTRSPLGYGYVNFRFPADAEWALNTMNFDLI
ParentalKGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFET
.GKP.R.MWSQ.D..LRKSGVGNIFIKNLDKSIDN.AL...FSAFG.ILSCKVVCD.NGSKGY..VHF..
RetrocopyNGKPFRLMWSQPDDRLRKSGVGNIFIKNLDKSIDNRALFYLFSAFGSILSCKVVCDDNGSKGYAYVHFDS
ParentalQEAAERAIEKMNGMLLNDRKVFAGRFKSRKEREAELGARAK-EFTNVYIKNFGEDMDDERLKDLFGKFGP
..AA.RAI..MNG..LN.R.V..GRFK...ER.AE...R....FTNV..KNFG.DMDD..LK.LF...GP
RetrocopyLAAANRAIWHMNGVRLNNRQVYVGRFKFPEERAAEVRTRDRATFTNVFVKNFGDDMDDDKLKELFSEYGP
ParentalALSVKVMTDESGKSKGFGFVSFERHEDAQKAVDEMNGKELNGKQIYVGRAQKKVERQTELKRKFEQMKQD
..SVKV..D.SGKSKGFGFV..E.HE.AQKAV....GK...GK..YVGRAQKK.ER..EL.R.FE.....
RetrocopyTESVKVIRDASGKSKGFGFVRYETHEAAQKAVLDLHGKSIDGKVLYVGRAQKKIERLAELRRRFERLRLK
ParentalRITRYQGVNLYVKNLDDGIDDERLRKEFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGR
...R..GV..Y.KNLD..IDDE.L..EFS.FG.I..AKVM.E.G..KGFG.VCFSS.EEATKAV.EMNGR
RetrocopyEKSRPPGVPIYIKNLDETIDDEKLKEEFSSFGSISRAKVMVEVGQGKGFGVVCFSSFEEATKAVDEMNGR
ParentalIVATKPLYVALAQRK
IV..KPL.V.L.Q..
RetrocopyIVGSKPLHVTLGQAR

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_1050 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_1050 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 16 parental genes, and 38 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000158335 retrocopies
retro_cjac_1586, retro_cjac_2571, retro_cjac_3218, retro_cjac_4039, retro_cjac_41,
Homo sapiens ENSG000000707561 retrocopy
retro_hsap_88,
Macaca mulatta ENSMMUG000000177862 retrocopies
retro_mmul_1462, retro_mmul_895,
Monodelphis domestica ENSMODG000000062224 retrocopies
retro_mdom_123, retro_mdom_1867, retro_mdom_216, retro_mdom_43,
Mus musculus ENSMUSG000000222832 retrocopies
retro_mmus_102, retro_mmus_2164,
Nomascus leucogenys ENSNLEG000000031423 retrocopies
retro_nleu_221, retro_nleu_2412, retro_nleu_611,
Oryctolagus cuniculus ENSOCUG000000043541 retrocopy
retro_ocun_13,
Pongo abelii ENSPPYG000000187903 retrocopies
retro_pabe_2373, retro_pabe_68, retro_pabe_854,
Pteropus vampyrus ENSPVAG000000166402 retrocopies
retro_pvam_10, retro_pvam_855,
Rattus norvegicus ENSRNOG000000086393 retrocopies
retro_rnor_1228, retro_rnor_2321, retro_rnor_265,
Sarcophilus harrisii ENSSHAG000000112671 retrocopy
retro_shar_24,
Sus scrofa ENSSSCG000000060632 retrocopies
retro_sscr_1153, retro_sscr_1205,
Tursiops truncatus ENSTTRG000000021171 retrocopy
retro_ttru_715,
Tursiops truncatus ENSTTRG00000004689 2 retrocopies
retro_ttru_1050 , retro_ttru_1812,
Tursiops truncatus ENSTTRG000000143402 retrocopies
retro_ttru_1117, retro_ttru_246,
Vicugna pacos ENSVPAG000000038654 retrocopies
retro_vpac_14, retro_vpac_384, retro_vpac_620, retro_vpac_649,


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