RetrogeneDB ID:

retro_tsyr_522

Retrocopy
location
Organism:Tarsier (Tarsius syrichta)
Coordinates:scaffold_13289:12375..13072(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS4X
Ensembl ID:ENSTSYG00000003137
Aliases:None
Description:ribosomal protein S4, X-linked [Source:HGNC Symbol;Acc:10424]


Retrocopy-Parental alignment summary:






>retro_tsyr_522
ATGGCTTTTGGTCCCAAGAAGCATCTGAAGTGGGTGGCAGTTATAAAGCATTGAACGCTGGATAAACTGATTGGTGTGTT
TGCTCCCCTTCCATCCACTGGTCCCCACAAGCTAAGAGAGTGTCTTCCTCTCATCATTTTATTAAGGAACAGATTTAAGT
ATGCCCTGACTGGAGATGAGGTAAAAAAGATTTGCATGCAGTGGTTCATTAAGATAGATATTGAGGCCCAAACTGTTATA
AACTACCCTACTGGTTTTATAGATGTCATAAGCATGGACAAGGCTGGAGAGAATTCCTGCATGGTCTATGACAGCAAGAG
TTGCTTTGCTGTTCATTGTATTACACCCGAGGAAGCTAAGTACAAGTTGTACAATGTGAGAAAAAACATTTGTGGGCACA
AAAGGAATCCCTCACCTGGTAACGCATGAAGTTCACACCATCTGCTACCCTGATTCCTTCAACAAGGTGAATGACACCAT
TCGTATTAAGTTGGAGACTGGCAAGATTATCAATTTCATCAAATTTGATGCTAGTAACCTGTGGTTAGTGACCGGCAGTG
CTAACCTTGGAAGAATCGTTTGTGATGGGAACAACAACAGAGTAACGTATCCTGGGTCTTTTAACGTAGTTCATATAAAA
GGTGCCCACGGCAACAATTTTGCCACCCAGCTCTCCAATATTTTTGTTATTGCCAAA

ORF - retro_tsyr_522 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.39 %
Parental protein coverage: 87.31 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMARGPKKHLKRVAAPKHWMLDKLTGVFAPRPST-PHKLRECLPLIIF-RNRLKYALTGDEVKKICMQRFI
MA.GPKKHLK.VA..KH..LDKL.GVFAP.PST.PHKLRECLPLII..RNR.KYALTGDEVKKICMQ.FI
RetrocopyMAFGPKKHLKWVAVIKH*TLDKLIGVFAPLPSTGPHKLRECLPLIILLRNRFKYALTGDEVKKICMQWFI
ParentalKIDGKVRTDITYPAGFMDVISIDKTGENFRLIYDTKGRFAVHRITPEEAKYKLCKVR-KIFVGTKGIPHL
KID....T.I.YP.GF.DVIS.DK.GEN....YD.K..FAVH.ITPEEAKYKL..VR.K.FVGTKGIPHL
RetrocopyKIDIEAQTVINYPTGFIDVISMDKAGENSCMVYDSKSCFAVHCITPEEAKYKLYNVR>KTFVGTKGIPHL
ParentalVTHDARTIRYPDPLIKVNDTIQIDLEAGKITDFIKFDTGNLCMVTGGANL-RIGVITNRER--HPGSFDV
VTH...TI.YPD...KVNDTI.I.LE.GKI..FIKFD..NL..VTG.ANL.RI....N..R...PGSF.V
RetrocopyVTHEVHTICYPDSFNKVNDTIRIKLETGKIINFIKFDASNLWLVTGSANLGRIVCDGNNNRVTYPGSFNV
ParentalVHVKDAYGNSFATRLSNIFVIDK
VH.K.A.GN.FAT.LSNIFVI.K
RetrocopyVHIKGAHGNNFATQLSNIFVIAK

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_522 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 16 parental genes, and 64 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000146011 retrocopy
Bos taurus ENSBTAG000000188005 retrocopies
Canis familiaris ENSCAFG000000171512 retrocopies
Cavia porcellus ENSCPOG000000063373 retrocopies
Dipodomys ordii ENSDORG000000085714 retrocopies
Equus caballus ENSECAG000000108526 retrocopies
Homo sapiens ENSG000001298241 retrocopy
Meleagris gallopavo ENSMGAG000000096711 retrocopy
Myotis lucifugus ENSMLUG000000116855 retrocopies
Monodelphis domestica ENSMODG000000110701 retrocopy
Mustela putorius furoENSMPUG0000000529411 retrocopies
Otolemur garnettii ENSOGAG000000118082 retrocopies
Pan troglodytes ENSPTRG000000224701 retrocopy
Rattus norvegicus ENSRNOG000000032011 retrocopy
Tarsius syrichta ENSTSYG00000003137 16 retrocopies
Vicugna pacos ENSVPAG000000109524 retrocopies



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