RetrogeneDB ID:

retro_tsyr_477

Retrocopy
location
Organism:Tarsier (Tarsius syrichta)
Coordinates:scaffold_12441:6345..6795(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL6
Ensembl ID:ENSTSYG00000009492
Aliases:None
Description:ribosomal protein L6 [Source:HGNC Symbol;Acc:10362]


Retrocopy-Parental alignment summary:






>retro_tsyr_477
CCCTATCATCAGCATCTGAGAAAACTACCAACTAGCATCTCTCCTGAAGTTATTCTGGTCATCCTCATTGGGCACCACAG
AGGCAAGAGGACGGTTTTCCTAATGCAACTGAGTAGTGGCTTCCTACACATGACTGGACTTGTGGTCCTTAACTGAGTTC
CTCTGTGAAGAACACATCAGAAATTTATAATTACCCCCTTCACAAAAACTAATATTAACAATGTGAAACTCCCCAAACTT
CTCATTGATGCTTACTTCAAAAAGAAGCAGCTGTGGAAGCCTAGACAGTAGGGAGGTGATGTCTTTGACACAGAAAAAGA
GAAATTTGAGATTACAGAGCAGAGTAAGGTTAATTAGAAAGCTGTGGGCTCACAAATTTTACCAAAAATCAAAGCTATTC
TTCAGTTTCATGTCTACCTACAATCTGTGTTTGCCCTGGTGAAGGACATT

ORF - retro_tsyr_477 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 65.33 %
Parental protein coverage: 52.08 %
Number of stop codons detected: 4
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalPFSQHIRKLRASITPGTILIILTGRHRGKRVVFLKQLGSGLLLVTGPLVLNRVPLRRTHQKFVIATSTKI
P..QH.RKL..SI.P..IL.IL.G.HRGKR.VFL.QL.SG.L..TG..VLN.VPL.RTHQKF.I...TK.
RetrocopyPYHQHLRKLPTSISPEVILVILIGHHRGKRTVFLMQLSSGFLHMTGLVVLN*VPL*RTHQKFIITPFTKT
ParentalDISNVKVPKHLTDAYFKKKQLRKPRHQEGEIFDTEKEKYEITEQRKIDQKAVDSQILPKIKAIPQLQGYL
.I.NVK.PK.L.DAYFKKKQL.KPR...G..FDTEKEK.EITEQ.K...KAV.SQILPKIKAI.Q...YL
RetrocopyNINNVKLPKLLIDAYFKKKQLWKPRQ*GGDVFDTEKEKFEITEQSKVN*KAVGSQILPKIKAILQFHVYL
ParentalRSVFALTNGV
.SVFAL....
RetrocopyQSVFALVKDI

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Tarsius syrichta was not studied using RNA-Seq expression data.
Tarsius syrichta was not studied using ChIP-Seq data.
Tarsius syrichta was not studied using EST data.
Tarsius syrichta was not studied using FANTOM5 data.
retro_tsyr_477 was not experimentally validated.

Retrocopy orthology:
Tarsius syrichta 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 22 parental genes, and 157 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000030601 retrocopy
Bos taurus ENSBTAG000000317236 retrocopies
Canis familiaris ENSCAFG000000088731 retrocopy
Callithrix jacchus ENSCJAG000000124507 retrocopies
Cavia porcellus ENSCPOG000000135268 retrocopies
Dipodomys ordii ENSDORG000000057931 retrocopy
Equus caballus ENSECAG000000175141 retrocopy
Erinaceus europaeus ENSEEUG000000002813 retrocopies
Felis catus ENSFCAG0000000685812 retrocopies
Homo sapiens ENSG0000008900926 retrocopies
Gorilla gorilla ENSGGOG0000000337216 retrocopies
Macaca mulatta ENSMMUG000000074331 retrocopy
Monodelphis domestica ENSMODG000000030964 retrocopies
Mustela putorius furoENSMPUG000000025269 retrocopies
Mus musculus ENSMUSG0000002961413 retrocopies
Nomascus leucogenys ENSNLEG000000270932 retrocopies
Oryctolagus cuniculus ENSOCUG000000038025 retrocopies
Pongo abelii ENSPPYG0000002585513 retrocopies
Rattus norvegicus ENSRNOG000000259361 retrocopy
Sarcophilus harrisii ENSSHAG000000070962 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000094093 retrocopies
Tarsius syrichta ENSTSYG00000009492 22 retrocopies



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