RetrogeneDB ID:

retro_ptro_1194

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:17:68097531..68097761(+)
Located in intron of:ENSPTRG00000009587
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SNRPG
Ensembl ID:ENSPTRG00000012029
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_1194
GTGAGCAAAGCTTACCCTCCCGAGTTGAAAAAATTGATGGACAAAAAGTTATCATTGAAAATTAAATGGTGGTAGACATG
TCCAAGGAATATTGTGGGGGATTTGATCCCTTTATGAATCTTGTGATAGATTAATGTGTGGAGATGGCAACTAGTGGGCA
ACAGAACAATATTGGAATGGTGGTAATGCGATGTAATGGCATCATCATGTTAGAAGCCTTGGAACAAGTA

ORF - retro_ptro_1194 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.9 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMSKAHPPELKKFMDKKLSLK-LNGGRHVQGIL-RGFDPFMNLVIDECVEMATSGQQNNIGMVVIRGNSII
.SKA.PPELKK.MDKKLSLK.LNGGRHVQGIL..GFDPFMNLVID.CVEMATSGQQNNIGMVV.R.N.II
RetrocopyVSKAYPPELKKLMDKKLSLK>LNGGRHVQGIL>GGFDPFMNLVID*CVEMATSGQQNNIGMVVMRCNGII
ParentalMLEALERV
MLEALE.V
RetrocopyMLEALEQV

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 6 .95 RPM
SRP007412_cerebellum 0 .11 RPM 5 .84 RPM
SRP007412_heart 0 .00 RPM 14 .17 RPM
SRP007412_kidney 0 .03 RPM 16 .58 RPM
SRP007412_liver 0 .00 RPM 15 .06 RPM
SRP007412_testis 0 .00 RPM 29 .40 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_1194 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_1194 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_1194 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 23 parental genes, and 219 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG0000003259514 retrocopies
Callithrix jacchus ENSCJAG0000001931318 retrocopies
Cavia porcellus ENSCPOG000000250226 retrocopies
Equus caballus ENSECAG000000199895 retrocopies
Felis catus ENSFCAG000000081188 retrocopies
Homo sapiens ENSG0000014397712 retrocopies
Loxodonta africana ENSLAFG000000023013 retrocopies
Microcebus murinus ENSMICG0000001536910 retrocopies
Myotis lucifugus ENSMLUG000000264903 retrocopies
Macaca mulatta ENSMMUG000000079613 retrocopies
Monodelphis domestica ENSMODG000000115281 retrocopy
Mustela putorius furoENSMPUG000000072212 retrocopies
Mus musculus ENSMUSG000000572781 retrocopy
Nomascus leucogenys ENSNLEG000000101821 retrocopy
Oryctolagus cuniculus ENSOCUG000000112142 retrocopies
Otolemur garnettii ENSOGAG0000001530013 retrocopies
Pongo abelii ENSPPYG0000001232414 retrocopies
Pan troglodytes ENSPTRG00000012029 11 retrocopies
Pteropus vampyrus ENSPVAG000000048553 retrocopies
Rattus norvegicus ENSRNOG000000165071 retrocopy
Ictidomys tridecemlineatus ENSSTOG0000000865411 retrocopies
Tupaia belangeri ENSTBEG0000001738166 retrocopies
Tarsius syrichta ENSTSYG0000000572911 retrocopies



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