RetrogeneDB ID:

retro_chof_535

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_119288:5181..5556(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS2
Ensembl ID:ENSCHOG00000012360
Aliases:None
Description:ribosomal protein S2 [Source:HGNC Symbol;Acc:10404]


Retrocopy-Parental alignment summary:






>retro_chof_535
CCCGTGTGCCTGGACTATTAGGGGAATAAGATCGGCAAGCCCCACTCCCTCCCATGCAAGGTGACGGGACACTGGGACTC
TATGCTGGTGCGGCTCATCCATGTCCCCAGGGGCACTGGCATTGTCCCGACCTCCAAGCCCAAAAAACTGCTGCTGATGG
TGGTATTGAGCACTGTTACATCTGGCCAGGGCCTGCACGGACACTCCTGGCAACTACCTCAAGACCACCTTGGTTCCATC
TCCAAGACCAGTAGCTATCTTTCCCCCAACCTCTGCAAAGGAACCTAGTTCACCAAGTCTCCCTCTCGGGAATTCACAGA
CCATCTTGTAAAGACCCACACCAGAGTCTCTGTGCAGAGGACCTAGGTCCCCTCT

ORF - retro_chof_535 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.34 %
Parental protein coverage: 62.38 %
Number of stop codons detected: 3
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalPVRRGYWGNKIGKPHTVPCKVTVRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMA-GIDDCYT-SARGCTA
PV...Y.GNKIGKPH..PCKVT....S.LVRLI..PRGTGIV....PKKLL.M..GI..CY...AR.CT.
RetrocopyPVCLDY*GNKIGKPHSLPCKVTGHWDSMLVRLIHVPRGTGIVPTSKPKKLLLMV<GIEHCYI<LARACTD
ParentalTLGNFAKATF-DAISKTYSYLTPDLWKETVFTKSPYQEFTDHLVKTHTRVSVQRTQAPA
T.GN..K.T....ISKT.SYL.P.L.K.T.FTKSP..EFTDHLVKTHTRVSVQRT..P.
RetrocopyTPGNYLKTTL<GSISKTSSYLSPNLCKGT*FTKSPSREFTDHLVKTHTRVSVQRT*VPS

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






RNA-Seq - click to see more details

Choloepus hoffmanni was not studied using RNA-Seq expression data.