RetrogeneDB ID:

retro_ptro_141

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:1:39999365..39999683(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CCDC25
Ensembl ID:ENSPTRG00000020109
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_141
GGAGAGAACATAGAAGACATTCCAAAGGAAGTGCTGATGGACTGTGCCCACCTTGTGAAAGCCAGTAGCATTCAAGGCTG
CAAGATGAACGTTAATGTGGTATATACGCCGCAGTCTAACCTGAAGAAAACAGCTGACATGGATGTGGGGCACATAGGTT
TTCACAGGCAGAAGGATGTAAAAGTTGTGACATGGGAGAAAAAAGTAAATGAGATCCTGAACCGATTAGAAAAGACCAAA
GTGGAGCGGTTCCCAGACCTAGCAGCAGAGAAAGAATGCAGAGATCGTGAAGAGAGGAATGAGAAAACAGCCCAAATT

ORF - retro_ptro_141 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.46 %
Parental protein coverage: 51.44 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGENIEDIPKEVLMDCAHLVKANSIQGCKMNNVNVVYTPWSNLKKTADMDVGQIGFHRQKDVKIVTVEKKV
GENIEDIPKEVLMDCAHLVKA.SIQGCKMN.VNVVYTP.SNLKKTADMDVG.IGFHRQKDVK.VT.EKKV
RetrocopyGENIEDIPKEVLMDCAHLVKASSIQGCKMN-VNVVYTPQSNLKKTADMDVGHIGFHRQKDVKVVTWEKKV
ParentalNEILNRLEKTKVERFPDLAAEKECRDREERNEKKAQI
NEILNRLEKTKVERFPDLAAEKECRDREERNEK.AQI
RetrocopyNEILNRLEKTKVERFPDLAAEKECRDREERNEKTAQI

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain_prefrontal_cortex 0 .02 RPM 37 .93 RPM
SRP007412_cerebellum 0 .00 RPM 30 .08 RPM
SRP007412_heart 0 .00 RPM 37 .10 RPM
SRP007412_kidney 0 .00 RPM 32 .06 RPM
SRP007412_liver 0 .00 RPM 32 .67 RPM
SRP007412_testis 0 .21 RPM 44 .58 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_141 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_141 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_141 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Pongo abelii retro_pabe_477

Parental genes homology:
Parental genes homology involve 9 parental genes, and 11 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000129712 retrocopies
Dipodomys ordii ENSDORG000000065951 retrocopy
Echinops telfairi ENSETEG000000064781 retrocopy
Homo sapiens ENSG000001474191 retrocopy
Gorilla gorilla ENSGGOG000000096851 retrocopy
Monodelphis domestica ENSMODG000000159761 retrocopy
Pongo abelii ENSPPYG000000184682 retrocopies
Pan troglodytes ENSPTRG00000020109 1 retrocopy
retro_ptro_141 ,
Tarsius syrichta ENSTSYG000000007321 retrocopy



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