RetrogeneDB ID:

retro_ptro_1559

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:2A:100783584..100783920(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ARPP19
Ensembl ID:ENSPTRG00000042183
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_1559
ATGTCTGTGGAAGTCTCCGAGGCAGCCTCTGTGGAGGAGCAGAAGGAAATGGAAGATACGGTGACTAGTCCAGAGAAAGT
TGAAGCAGCAAAATTGAAAGCGAGATATCCTCATCTGGGACAAATGCCTGGAGGTTCAGATTTCTTAAGGAAACCATTGC
AGAAAGGGCAAAAATATTTTGATTCTGGGGATTACAACATGGCTAAAGCAAAAATGAAGAACGAGCAACTTCCTACTGCA
GCTCTGGATAAGATGGAGGTCACGGGTGACCACATTCCCACTCCAGAGGACCTTCCTCAACAGAAACCATCCATTGTTGC
TAGCAAGCTGGCTGGT

ORF - retro_ptro_1559 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.5 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMSAEVPEAASAEEQKEMEDKVTSPEKAEEAKLKARYPHLGQKPGGSDFLRKRLQKGQKYFDSGDYNMAKA
MS.EV.EAAS.EEQKEMED.VTSPEK.E.AKLKARYPHLGQ.PGGSDFLRK.LQKGQKYFDSGDYNMAKA
RetrocopyMSVEVSEAASVEEQKEMEDTVTSPEKVEAAKLKARYPHLGQMPGGSDFLRKPLQKGQKYFDSGDYNMAKA
ParentalKMKNKQLPTAAPDKTEVTGDHIPTPQDLPQRKPSLVASKLAG
KMKN.QLPTAA.DK.EVTGDHIPTP.DLPQ.KPS.VASKLAG
RetrocopyKMKNEQLPTAALDKMEVTGDHIPTPEDLPQQKPSIVASKLAG

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 142 .14 RPM
SRP007412_cerebellum 0 .00 RPM 25 .99 RPM
SRP007412_heart 0 .00 RPM 27 .86 RPM
SRP007412_kidney 0 .00 RPM 24 .11 RPM
SRP007412_liver 0 .00 RPM 10 .51 RPM
SRP007412_testis 0 .00 RPM 67 .66 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_1559 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_1559 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_1559 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2130

Parental genes homology:
Parental genes homology involve 13 parental genes, and 35 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000110225 retrocopies
Canis familiaris ENSCAFG000000325152 retrocopies
Dasypus novemcinctus ENSDNOG000000044749 retrocopies
Dipodomys ordii ENSDORG000000113212 retrocopies
Echinops telfairi ENSETEG000000155501 retrocopy
Homo sapiens ENSG000001289892 retrocopies
Gorilla gorilla ENSGGOG000000252501 retrocopy
Otolemur garnettii ENSOGAG000000138651 retrocopy
Pongo abelii ENSPPYG000000064872 retrocopies
Pan troglodytes ENSPTRG00000042183 1 retrocopy
retro_ptro_1559 ,
Sus scrofa ENSSSCG000000046181 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000036777 retrocopies
Tursiops truncatus ENSTTRG000000048041 retrocopy



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