RetrogeneDB ID:

retro_ptro_42

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:22:23098063..23098315(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSPTRG00000040730
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSPTRG00000013708
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_42
ATGCAGAACGACGCCGGCGAGTTCGTGGACCTGTACGTGCCGCGGAAATGCTCCGCTAGCAATCGCATCATCGGTGCCAA
GGACCACGCATCCATCCAGATGAACGTGGCCGAGGTTGACAAGGTCACAGGCAGGTTTAATGGCCAGTTTAAAACTTATG
CTATCTGCGGGGCCATTCGTAGGATGGGTGAGTCAGATGATTCCATTCTCCGATTGGCCAAGGCCGATGGCATCGTCTCA
AAGAACTTTTGA

ORF - retro_ptro_42 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 100. %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMQNDAGEFVDLYVPRKCSASNRIIGAKDHASIQMNVAEVDKVTGRFNGQFKTYAICGAIRRMGESDDSIL
MQNDAGEFVDLYVPRKCSASNRIIGAKDHASIQMNVAEVDKVTGRFNGQFKTYAICGAIRRMGESDDSIL
RetrocopyMQNDAGEFVDLYVPRKCSASNRIIGAKDHASIQMNVAEVDKVTGRFNGQFKTYAICGAIRRMGESDDSIL
ParentalRLAKADGIVSKNF
RLAKADGIVSKNF
RetrocopyRLAKADGIVSKNF

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 5 .54 RPM 153 .11 RPM
SRP007412_cerebellum 0 .39 RPM 38 .14 RPM
SRP007412_heart 0 .09 RPM 24 .98 RPM
SRP007412_kidney 1 .15 RPM 216 .82 RPM
SRP007412_liver 0 .29 RPM 52 .24 RPM
SRP007412_testis 0 .21 RPM 5 .69 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_42 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_42 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_42 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 27 parental genes, and 112 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000173992 retrocopies
Bos taurus ENSBTAG000000207952 retrocopies
Canis familiaris ENSCAFG000000126764 retrocopies
Callithrix jacchus ENSCJAG000000141955 retrocopies
Cavia porcellus ENSCPOG000000019654 retrocopies
Erinaceus europaeus ENSEEUG000000045732 retrocopies
Homo sapiens ENSG000001718586 retrocopies
Gorilla gorilla ENSGGOG000000237457 retrocopies
Latimeria chalumnae ENSLACG000000127531 retrocopy
Loxodonta africana ENSLAFG000000157934 retrocopies
Macropus eugenii ENSMEUG000000158322 retrocopies
Microcebus murinus ENSMICG000000129975 retrocopies
Myotis lucifugus ENSMLUG000000003463 retrocopies
Macaca mulatta ENSMMUG000000050068 retrocopies
Monodelphis domestica ENSMODG000000167691 retrocopy
Mus musculus ENSMUSG0000003900111 retrocopies
Ornithorhynchus anatinus ENSOANG000000033612 retrocopies
Otolemur garnettii ENSOGAG0000001667312 retrocopies
Ochotona princeps ENSOPRG000000009371 retrocopy
Pongo abelii ENSPPYG000000112058 retrocopies
Pan troglodytes ENSPTRG00000013708 1 retrocopy
retro_ptro_42 ,
Pteropus vampyrus ENSPVAG000000035482 retrocopies
Rattus norvegicus ENSRNOG000000063252 retrocopies
Sus scrofa ENSSSCG000000218251 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000010295 retrocopies
Tarsius syrichta ENSTSYG000000070615 retrocopies
Tursiops truncatus ENSTTRG000000111056 retrocopies



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