RetrogeneDB ID:

retro_ttru_1925

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_98941:5549..6083(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NUDT4
Ensembl ID:ENSTTRG00000003309
Aliases:None
Description:nudix (nucleoside diphosphate linked moiety X)-type motif 4 [Source:HGNC Symbol;Acc:8051]


Retrocopy-Parental alignment summary:






>retro_ttru_1925
ATGATGAAGTTCAAGCCCTACCAGACGCGGACCTATGACCGCGAGGGCTTCAAGAAGAGGGCTGTGTGCTTGTGCTTCCG
GAGCGAGCAGGAGGACGAGGTGCTGTTGGTGAGCAGCAGTGGGTACCCAGACCAATGGATTGTCCCAGGAGAAGTAATGG
AGCCCGAGGAGGAGCCTGGCGGTACTGCCGTGAGGGAGGTTTATGGAGAGGCTGGAATCAAAGGAAAATTGGGCAGACTC
CTGGGCATATTTGAGAACAAAGACCGAAAGCACAGACATATGTTTATGTTCTTACTGTCACTGAAATACTAGAAGCCTGG
GAAGATTCTGTTAATACAGGAAAAAGAGAGAGTGGTTCAAAGTAGAAGATGTCATCAAAGTTCTCCAGTGTCATAAGCCT
TACATGTCGAGTATCTGGAAAAACTAAAGCTGGGTTGTTCTCCAGCCAATGGAAATTCCACAGTCCCTTCCCTTCCAGAT
AGCAACACTGTGTTTGTAACTGCTGCACAGACCTCTGGGCTGCAGTCTAGTGTG

ORF - retro_ttru_1925 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.43 %
Parental protein coverage: 99.45 %
Number of stop codons detected: 0
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMMKFKPNQTRTYDREGFKKRAACLCFRSEQEDEVLLVSSSRYPDQWIVPGGGMEPEEEPGGAAVREVYEE
MMKFKP.QTRTYDREGFKKRA.CLCFRSEQEDEVLLVSSS.YPDQWIVPG..MEPEEEPGG.AVREVY.E
RetrocopyMMKFKPYQTRTYDREGFKKRAVCLCFRSEQEDEVLLVSSSGYPDQWIVPGEVMEPEEEPGGTAVREVYGE
ParentalAGVKGKLGRLLGIFEQNQDRKHR-TYVYVLTVTEILEDWEDSVNIG-RKREWFKVEDAIKVLQCHKP-VH
AG.KGKLGRLLGIFE.N.DRKHR.TYVYVLTVTEILE.WEDSVN.G..KREWFKVED.IKVLQCHKP..H
RetrocopyAGIKGKLGRLLGIFE-NKDRKHR<TYVYVLTVTEILEAWEDSVNTG<KKREWFKVEDVIKVLQCHKP<LH
ParentalAEYLEKLKLGCSPTNGNSTVPSLPDNNTLFVTAAQTSGLPSSV
.EYLEKLKLGCSP.NGNSTVPSLPD.NT.FVTAAQTSGL.SSV
RetrocopyVEYLEKLKLGCSPANGNSTVPSLPDSNTVFVTAAQTSGLQSSV

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_1925 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_1925 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 18 parental genes, and 33 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000098442 retrocopies
Dasypus novemcinctus ENSDNOG000000152073 retrocopies
Dipodomys ordii ENSDORG000000006473 retrocopies
Equus caballus ENSECAG000000193191 retrocopy
Echinops telfairi ENSETEG000000139222 retrocopies
ENSG000001735980 retrocopies
Gorilla gorilla ENSGGOG000000143241 retrocopy
Loxodonta africana ENSLAFG000000137761 retrocopy
Microcebus murinus ENSMICG000000071002 retrocopies
Myotis lucifugus ENSMLUG000000027671 retrocopy
Monodelphis domestica ENSMODG000000094681 retrocopy
Mus musculus ENSMUSG000000200293 retrocopies
Oryctolagus cuniculus ENSOCUG000000112831 retrocopy
Pteropus vampyrus ENSPVAG000000137301 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000203061 retrocopy
Tupaia belangeri ENSTBEG000000121987 retrocopies
Tursiops truncatus ENSTTRG00000003309 2 retrocopies
retro_ttru_1625, retro_ttru_1925 ,
Vicugna pacos ENSVPAG000000029571 retrocopy



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