RetrogeneDB ID:

retro_ttru_1940

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_99606:7716..8705(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ODC1
Ensembl ID:ENSTTRG00000004611
Aliases:None
Description:ornithine decarboxylase 1 [Source:HGNC Symbol;Acc:8109]


Retrocopy-Parental alignment summary:






>retro_ttru_1940
GTCACACCCTTTTATGCAGTCAAATGCAATGATAGTAGAACCATAGTGAAGACCACACCTGCCATTGGGAAAGGATTTGA
CTGTACCAGCAAGACTGAAATCCAGTTAGTGCAGAGTCTCAGGGTGCCTCCAGAGAGGATTATCTATGCAAATCCTTGTA
AACAAGTGTCTCAGATTAAATATGCTGCCAATAATGGAGTCCAAATGATGACTTTTGATAGTGAAGTCGAGGTGGTGAAA
GTTGCCAGGGCACATCCAAAGGCCAAGTTGGTTTTTCAGATTGCCACTGATGATTCCAAAGCAGTCTGTCACCTCAGTGT
CAAATTTGGTGTCACGCTCAAAACCAGCAGGCTTATTTTGGAATGGGCAAAAGAGCAAGATATTGATGTCATTGGTGTCA
GCTACCATGTGGGACATCATTGTACTGATCCAGAGACCTTCGTGCAGACCATCTCTGATGCCCACTGTGACTTTGACATG
GGAGCTGAGGTTGGTTTCAACATGTTTCTGCTTGATATTGGTGGTGGCTTTCCTGGATCTGAGGATGTAAATCTTAAATT
TGAAGAGACCACCAGTGTAATCAACCCAGTGTCATGCAAGTATTTTCCATCAGATTCTGGAGTGAGAATCATACCTGAGC
CAGGAAGATACTGTGTTGCCTCAGTTTTCACTCTAGCTGTTAATATCATTGCCAAAAACTCATCTTAAAGGAACAGACAG
GCTCTGATGATGAAGATGAGTCGAGTGAACAGACATTTATGTATTATGTGAATGATGGAGTATATGCATCATTCAACTGC
ATCCTCTACGATCATGAACATGTGAAGCCTCTTCTGCAGAAGAGACTCAAACCAGATGAGAAGTATTATTCATTCAGCAT
CTGGGGACCAACCTGTGATGGCCCGGATCGCATTGTTGAGCACTGTAACTTACTTGAGATGCATGAGGGCGATTGGATGC
TGTTTGAAAACATGGGTGTTTACACTCTG

ORF - retro_ttru_1940 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.01 %
Parental protein coverage: 71.74 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalVTPFYAVKCNDSRTIVKTLAAIGTGFDCASKTEIQLVQSLGVPPERIIYANPCKQVSQIKYAANNGVQMM
VTPFYAVKCNDSRTIVKT..AIG.GFDC.SKTEIQLVQSL.VPPERIIYANPCKQVSQIKYAANNGVQMM
RetrocopyVTPFYAVKCNDSRTIVKTTPAIGKGFDCTSKTEIQLVQSLRVPPERIIYANPCKQVSQIKYAANNGVQMM
ParentalTFDSEVELMKVARAHPKAKLVLRIATDDSKAVCRLSVKFGATLKTSRLLLERAKELEIDVIGVSFHVGSG
TFDSEVE..KVARAHPKAKLV..IATDDSKAVC.LSVKFG.TLKTSRL.LE.AKE..IDVIGVS.HVG..
RetrocopyTFDSEVEVVKVARAHPKAKLVFQIATDDSKAVCHLSVKFGVTLKTSRLILEWAKEQDIDVIGVSYHVGHH
ParentalCTDPETFVQAISDARCVFDMGAEVGFNMYLLDIGGGFPGSEDVKLKFEEITSVINPALDKYFPSDSGVRI
CTDPETFVQ.ISDA.C.FDMGAEVGFNM.LLDIGGGFPGSEDV.LKFEE.TSVINP...KYFPSDSGVRI
RetrocopyCTDPETFVQTISDAHCDFDMGAEVGFNMFLLDIGGGFPGSEDVNLKFEETTSVINPVSCKYFPSDSGVRI
ParentalIAEPGRYYVASAFTLAVNIIAK-KRVLKEQTGSDDEDESSEQTFMYYVNDGVYGSFNCILYDHAHVKPLL
I.EPGRY.VAS.FTLAVNIIAK.K..LKEQTGSDDEDESSEQTFMYYVNDGVY.SFNCILYDH.HVKPLL
RetrocopyIPEPGRYCVASVFTLAVNIIAK<KLILKEQTGSDDEDESSEQTFMYYVNDGVYASFNCILYDHEHVKPLL
ParentalQKRPKPDEKYYSSSIWGPTCDGLDRIVERCNLPEMHVGDWMLFENMGAYTV
QKR.KPDEKYYS.SIWGPTCDG.DRIVE.CNL.EMH.GDWMLFENMG.YT.
RetrocopyQKRLKPDEKYYSFSIWGPTCDGPDRIVEHCNLLEMHEGDWMLFENMGVYTL

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_1940 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_1940 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 12 parental genes, and 49 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000114151 retrocopy
Bos taurus ENSBTAG000000042561 retrocopy
Choloepus hoffmanni ENSCHOG000000108982 retrocopies
Dasypus novemcinctus ENSDNOG0000001847431 retrocopies
Equus caballus ENSECAG000000226902 retrocopies
Loxodonta africana ENSLAFG000000053302 retrocopies
Myotis lucifugus ENSMLUG000000104231 retrocopy
Macaca mulatta ENSMMUG000000204412 retrocopies
Monodelphis domestica ENSMODG000000147791 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000003862 retrocopies
Tursiops truncatus ENSTTRG000000001401 retrocopy
Tursiops truncatus ENSTTRG00000004611 3 retrocopies
retro_ttru_1940 , retro_ttru_731, retro_ttru_843,



Copyright © RetrogeneDB 2014-2017