RetrogeneDB ID:

retro_ttru_355

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_1975:104806..105125(+)
Located in intron of:ENSTTRG00000000920
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL34
Ensembl ID:ENSTTRG00000003443
Aliases:None
Description:ribosomal protein L34 [Source:HGNC Symbol;Acc:10340]


Retrocopy-Parental alignment summary:






>retro_ttru_355
AGGCTGCCCCACAACACGGCCTCTGACAAAACGAGGCTGTCCCGAACCCCTGGCAATAGAATTGTTTACTCTTAAACCCA
GAAGGTTGGGAAAGCACCAAAATCTGCATGTGGAATGTGCCCAGGCCGACTTTGAGAAGTTGTTGCTGTGAGACCTAAAG
TTCTTATGAGGTTTCCTGAAACGAAACATGTCAGCCAGGCCCATGGTGGGTCCGTGTCTGCTAAGCATGTCCATGACCGG
TCATATATGCTTTCCTACGGAGGGGCAGAAAATTCTTGTGAAAGTGTTGAAGGCACAAGCACAGAGTCAGAAAGCTAAA

ORF - retro_ttru_355 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.55 %
Parental protein coverage: 92.31 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalRLSYNTASNKTRLSRTPGNRIVYLYTKKVGKAPKSACGVCPGRLRGVRAVRPKVLMRLSKTKKHVSRAYG
RL..NTAS.KTRLSRTPGNRIVY..T.KVGKAPKSACG.CPGRL..V.AVRPKVLMR...T.KHVS.A.G
RetrocopyRLPHNTASDKTRLSRTPGNRIVYS*TQKVGKAPKSACGMCPGRL*EVVAVRPKVLMRFPET-KHVSQAHG
ParentalGSMCAKCVRDR-IKRAFL-IEEQKIVVKVLKAQAQSQKAK
GS..AK.V.DR....AFL..E.QKI.VKVLKAQAQSQKAK
RetrocopyGSVSAKHVHDR<VIYAFL<TEGQKILVKVLKAQAQSQKAK

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_355 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_355 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 21 parental genes, and 257 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000159934 retrocopies
Dasypus novemcinctus ENSDNOG0000001117926 retrocopies
Equus caballus ENSECAG000000197191 retrocopy
Felis catus ENSFCAG0000001550216 retrocopies
Homo sapiens ENSG0000010947533 retrocopies
Gadus morhua ENSGMOG000000099821 retrocopy
Loxodonta africana ENSLAFG000000326156 retrocopies
Macropus eugenii ENSMEUG000000093613 retrocopies
Myotis lucifugus ENSMLUG000000004644 retrocopies
Monodelphis domestica ENSMODG000000206013 retrocopies
Mus musculus ENSMUSG0000006200626 retrocopies
Nomascus leucogenys ENSNLEG0000001293420 retrocopies
Pelodiscus sinensis ENSPSIG000000032951 retrocopy
Rattus norvegicus ENSRNOG0000001638736 retrocopies
Sarcophilus harrisii ENSSHAG000000013571 retrocopy
Sarcophilus harrisii ENSSHAG000000020523 retrocopies
Sus scrofa ENSSSCG000000091468 retrocopies
Tupaia belangeri ENSTBEG0000000357424 retrocopies
Tarsius syrichta ENSTSYG0000000178134 retrocopies
Tursiops truncatus ENSTTRG00000003443 6 retrocopies
Xenopus tropicalis ENSXETG000000210951 retrocopy



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