RetrogeneDB ID:

retro_ptro_2510

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:7:12467493..12467858(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSPTRG00000008742
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_2510
ATGAAGTTCAATCCCTTTGTGACTTCCGACCGGAGCAAGAACCGCAAAAGGCATTTCAAAGCACCTTCCCACATTCGCAG
GAAGATTATGTCTTCCCCACTTTCCGAAGAGCTGAGACAGAAGTACAACGTGCGATCCATGGCATCCGAAAGAATGATGA
AGTTCGGCTTGTACGAAGACACTACAAAGGTCAGCAAATTGGCAAAGCAGTCCTGGTTTACAGGAAGAAATATGTCACCT
ACATTGAATGGGTACAGCGGGAAAAGGCTAATGGCTCAGCTGTCCATGCAGGCATTCACCCCAGCAAGGTGGTTATCACT
AGGCTAAAACTGGACAAAGACCACAAAAAGATTCTTTTAAAAAAG

ORF - retro_ptro_2510 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.37 %
Parental protein coverage: 84.14 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMKFNPFVTSDRSKNRKRHFNAPSHIRRKIMSSPLSKELRQKYNVRSMP-IRKDDEVQVVRGHYKGQQIGK
MKFNPFVTSDRSKNRKRHF.APSHIRRKIMSSPLS.ELRQKYNVRSM..IRK.DEV..VR.HYKGQQIGK
RetrocopyMKFNPFVTSDRSKNRKRHFKAPSHIRRKIMSSPLSEELRQKYNVRSMA<IRKNDEVRLVRRHYKGQQIGK
ParentalVVQVYRKKYVIYIERVQREKANGTTVHVGIHPSKVVITRLKLDKDRKKILERK
.V.VYRKKYV.YIE.VQREKANG..VH.GIHPSKVVITRLKLDKD.KKIL..K
RetrocopyAVLVYRKKYVTYIEWVQREKANGSAVHAGIHPSKVVITRLKLDKDHKKILLKK

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 .00 RPM 147 .43 RPM
SRP007412_cerebellum 0 .04 RPM 66 .10 RPM
SRP007412_heart 0 .00 RPM 45 .91 RPM
SRP007412_kidney 0 .00 RPM 142 .42 RPM
SRP007412_liver 0 .00 RPM 66 .42 RPM
SRP007412_testis 0 .00 RPM 30 .56 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_2510 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_2510 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_2510 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_3700
Macaca mulatta retro_mmul_1710

Parental genes homology:
Parental genes homology involve 19 parental genes, and 144 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000123442 retrocopies
Callithrix jacchus ENSCJAG000000143728 retrocopies
Cavia porcellus ENSCPOG0000000131510 retrocopies
Equus caballus ENSECAG000000157574 retrocopies
Felis catus ENSFCAG0000001125913 retrocopies
Homo sapiens ENSG0000016197027 retrocopies
Macropus eugenii ENSMEUG000000098917 retrocopies
Myotis lucifugus ENSMLUG000000021761 retrocopy
Monodelphis domestica ENSMODG000000062012 retrocopies
Mustela putorius furoENSMPUG0000000798812 retrocopies
Mus musculus ENSMUSG0000006093821 retrocopies
Nomascus leucogenys ENSNLEG000000099811 retrocopy
Oryctolagus cuniculus ENSOCUG0000000653811 retrocopies
Otolemur garnettii ENSOGAG000000170703 retrocopies
Pan troglodytes ENSPTRG00000008742 3 retrocopies
retro_ptro_1546, retro_ptro_2510 , retro_ptro_73,
Rattus norvegicus ENSRNOG000000042143 retrocopies
Sarcophilus harrisii ENSSHAG000000068901 retrocopy
Sus scrofa ENSSSCG000000288509 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000219236 retrocopies



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