RetrogeneDB ID:

retro_ptro_1440

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:20:47903855..47904062(-)
Located in intron of:ENSPTRG00000013621
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSPTRG00000028317
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_1440
AACTCAGTGGTGGCCACTACGCAGACCAGACTTCGCTCGTTCTCGCGTGCCTCGCTCCGCTTTTCCTCCGTAACCATGTC
TGACAAATCCGATATGGCTGAGATCGAGAAATTCGATAAGTCGAAACTGAAGAAGACAGAGACGCAAGAGAAAAATCCAC
TGCCTTCCAAAGAAACGATTGAACAGGAGAAGCAAGCAGGCGAATCG

ORF - retro_ptro_1440 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 94.2 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalNSVVATAQTRLRSYSRASLRFSSATMSDKPDMAEIEKFDKSKLKKTETQEKNPLPSKETIEQEKQAGES
NSVVAT.QTRLRS.SRASLRFSS.TMSDK.DMAEIEKFDKSKLKKTETQEKNPLPSKETIEQEKQAGES
RetrocopyNSVVATTQTRLRSFSRASLRFSSVTMSDKSDMAEIEKFDKSKLKKTETQEKNPLPSKETIEQEKQAGES

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 1 .00 RPM 302 .67 RPM
SRP007412_cerebellum 0 .07 RPM 63 .56 RPM
SRP007412_heart 0 .00 RPM 53 .28 RPM
SRP007412_kidney 0 .00 RPM 105 .68 RPM
SRP007412_liver 0 .10 RPM 82 .39 RPM
SRP007412_testis 0 .00 RPM 8 .01 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_1440 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_1440 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_1440 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 4 parental genes, and 9 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000384882 retrocopies
Gorilla gorilla ENSGGOG000000064501 retrocopy
Macaca mulatta ENSMMUG000000142562 retrocopies
Pan troglodytes ENSPTRG00000028317 4 retrocopies



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