RetrogeneDB ID:

retro_shar_287

Retrocopy
location
Organism:Tasmanian devil (Sarcophilus harrisii)
Coordinates:GL841208.1:1003438..1003752(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL19
Ensembl ID:ENSSHAG00000016482
Aliases:None
Description:ribosomal protein L19 [Source:HGNC Symbol;Acc:10312]


Retrocopy-Parental alignment summary:






>retro_shar_287
AAGGGCAGACACCTGGATATTGGTAAGAGAAAAGATACAGTCAAAACTTGTATACCTGTGAGGATGATTTGGATGAGAAT
AAGGATTCTGTGCTGTCTACTCAATAGATACTAGGAATACAAAAACATTTACCACAATATTTACCACAGCCAGTGCTTGA
AAGTGAAGGGAATGTGTTCAAGAATTATCAGATCTTTATGGAGTATGCTCATAAATCAAAGGTAGAGAAAGTCCACAAGA
ATCTACTGTTTGAGCAGGCTGAAGTTCACAGGTCCAAGACCAAGGAAACATGAAAGAATCAGGAGGAGCATCTG

ORF - retro_shar_287 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 56.07 %
Parental protein coverage: 54.08 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalKGRHMGIGKRKGTANARMPEKVTWMRRMRILRRLLRRYRESKKIDRHMYHSLYLKVK-GNVFKNKRILME
KGRH..IGKRK.T.....P....WMR..RIL..LL.RY.E.K.I....YHS..LKVK.GNVFKN..I.ME
RetrocopyKGRHLDIGKRKDTVKTCIPVRMIWMR-IRILCCLLNRY*EYKNIYHNIYHSQCLKVK<GNVFKNYQIFME
ParentalHIHKLKADKARKKLLADQAEARRSKTKEARKRREERL
..HK.K..K..K.LL..QAE..RSKTKE..K..EE.L
RetrocopyYAHKSKVEKVHKNLLFEQAEVHRSKTKET*KNQEEHL

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






Sarcophilus harrisii was not studied using RNA-Seq expression data.
Sarcophilus harrisii was not studied using ChIP-Seq data.
Sarcophilus harrisii was not studied using EST data.
Sarcophilus harrisii was not studied using FANTOM5 data.
retro_shar_287 was not experimentally validated.

Retrocopy orthology:
Sarcophilus harrisii 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 14 parental genes, and 163 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000041215 retrocopies
Callithrix jacchus ENSCJAG000000085204 retrocopies
Dasypus novemcinctus ENSDNOG000000197427 retrocopies
Dipodomys ordii ENSDORG000000043301 retrocopy
Equus caballus ENSECAG000000250806 retrocopies
Homo sapiens ENSG0000010829821 retrocopies
Macaca mulatta ENSMMUG000000042352 retrocopies
Mus musculus ENSMUSG0000001740425 retrocopies
Nomascus leucogenys ENSNLEG0000000074819 retrocopies
Pongo abelii ENSPPYG0000000849220 retrocopies
Pteropus vampyrus ENSPVAG000000084989 retrocopies
Rattus norvegicus ENSRNOG0000000474137 retrocopies
Sarcophilus harrisii ENSSHAG00000016482 4 retrocopies
Sus scrofa ENSSSCG000000175093 retrocopies



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