RetrogeneDB ID:

retro_ptro_2214

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:5:179166824..179167184(+)
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:ENSPTRG00000009086
Aliases:None
Description:ribosomal protein L19 [Source:HGNC Symbol;Acc:10312]


Retrocopy-Parental alignment summary:






>retro_ptro_2214
ATGAGCATGCTCGGGCTTCGGAAGAGGCTCGCCTGTAGTGTCCTCCGCTGTGGCAAGAAGAAGGTCTGGTTGGACTCCAG
TGAGACCAATGAAATCGCCAAGGCCAACTCCCGTCAGCAGATCCGGAAGCTCATCAAAGACGGGCTGATCATCCGCAAGC
CTGTGACGGTCCATTCCCGGGCTGGATGCTGGAAAAACACCTTGGCCCGCCGGAAGGGCAGGCACACGGGCATAGGCGAG
CAGAAGGGTACAGCCAATGCCCGAATGCCAGAGAAGGTCACACGGATGAGGAGAATGAGGATTCTGCGCCGGCTGCTCAG
AAGAGACCGTGAATCTAAGAAGATCGATCGCCACGTGTAT

ORF - retro_ptro_2214 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.33 %
Parental protein coverage: 61.22 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMSMLRLQKRLASSVLRCGKKKVWLDPNETNEIANANSRQQIRKLIKDGLIIRKPVTVHSRARCRKNTLAR
MSML.L.KRLA.SVLRCGKKKVWLD..ETNEIA.ANSRQQIRKLIKDGLIIRKPVTVHSRA.C.KNTLAR
RetrocopyMSMLGLRKRLACSVLRCGKKKVWLDSSETNEIAKANSRQQIRKLIKDGLIIRKPVTVHSRAGCWKNTLAR
ParentalRKGRHMGIGKRKGTANARMPEKVTWMRRMRILRRLLRRYRESKKIDRHMY
RKGRH.GIG..KGTANARMPEKVT.MRRMRILRRLLRR.RESKKIDRH.Y
RetrocopyRKGRHTGIGEQKGTANARMPEKVTRMRRMRILRRLLRRDRESKKIDRHVY

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 3 .25 RPM 226 .38 RPM
SRP007412_cerebellum 0 .61 RPM 254 .63 RPM
SRP007412_heart 0 .15 RPM 225 .62 RPM
SRP007412_kidney 0 .16 RPM 560 .51 RPM
SRP007412_liver 0 .23 RPM 455 .07 RPM
SRP007412_testis 8 .43 RPM 166 .51 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_2214 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_2214 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_2214 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 10 parental genes, and 122 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000085204 retrocopies
Dasypus novemcinctus ENSDNOG000000197427 retrocopies
Equus caballus ENSECAG000000250806 retrocopies
Loxodonta africana ENSLAFG000000182573 retrocopies
Macaca mulatta ENSMMUG000000042352 retrocopies
Monodelphis domestica ENSMODG000000126932 retrocopies
Nomascus leucogenys ENSNLEG0000000074819 retrocopies
Pongo abelii ENSPPYG0000000849220 retrocopies
Pan troglodytes ENSPTRG00000009086 22 retrocopies
Rattus norvegicus ENSRNOG0000000474137 retrocopies



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