RetrogeneDB ID:

retro_oana_27

Retrocopy
location
Organism:Platypus (Ornithorhynchus anatinus)
Coordinates:Contig118262:523..938(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DFFB
Ensembl ID:ENSOANG00000013652
Aliases:None
Description:DNA fragmentation factor, 40kDa, beta polypeptide (caspase-activated DNase) [Source:HGNC Symbol;Acc:2773]


Retrocopy-Parental alignment summary:






>retro_oana_27
GGCATGGAATCTCGATTTAAGAATAAATATAGCCATATGAGGTATAGTTGTCAGAGCACAACCCAAATGAAAGAGGTAAA
CGCCTTCACTTCAGCTGTCGGTCCCAAGGCTCAGGCAGAAAAACTGAATATATTTGGCTGTGTGGGATAGAAGCCGAAAG
TGACCACTACAATGGGGGATACTTTGACAGATGAGAAAACAGGGCCAACTTTGTACGCCCCAAGACTGGTTCTCTTGCCA
GGGTCCATTTGACATTGATAGTTGCTCATCTAAACATTCCATCAACCACTTCAGCAACAGAGAGACCACAATTCCTTTCA
GTACATGTAATCTTGATCACAGGATAGAAAAGAAATGCACCGTCGTTCCAACCCTAGCGGAAGCTGTTAGGGAACAAAAC
AGAAGTGAAATAGAA

ORF - retro_oana_27 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.23 %
Parental protein coverage: 72.31 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalGLESRFKNKSGYMRYSCESRIRSYMKEVNTSASAIGPKAQAEYLKIIGCMGEKLKAA-QYNGGYFDRREK
G.ESRFKNK...MRYSC.S.....MKEVN...SA.GPKAQAE.L.I.GC.G.K.K....YNGGYFDR.E.
RetrocopyGMESRFKNKYSHMRYSCQSTTQ--MKEVNAFTSAVGPKAQAEKLNIFGCVG*KPKVT<HYNGGYFDR*EN
ParentalRA-RLCTPEGWFSCQGPFDIDSCLSKHSINPYSNRESRILFSTWNLDHIIEKKRTVVPTLAEAVREQDGR
RA..LCTP..WFSCQGPFDIDSC.SKHSIN..SNRE..I.FST.NLDH.IEKK.TVVPTLAEAVREQ...
RetrocopyRA<QLCTPQDWFSCQGPFDIDSCSSKHSINHFSNRETTIPFSTCNLDHRIEKKCTVVPTLAEAVREQNRS
ParentalEVD
E..
RetrocopyEIE

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 0 .00 RPM 1 .06 RPM
SRP007412_cerebellum 0 .00 RPM 1 .26 RPM
SRP007412_heart 0 .00 RPM 0 .62 RPM
SRP007412_kidney 0 .00 RPM 0 .89 RPM
SRP007412_liver 0 .00 RPM 2 .17 RPM
SRP007412_testis 0 .00 RPM 2 .37 RPM
Ornithorhynchus anatinus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_oana_27 retrocopy.
Ornithorhynchus anatinus was not studied using FANTOM5 data.
retro_oana_27 was not experimentally validated.

Retrocopy orthology:
Ornithorhynchus anatinus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 5 parental genes, and 9 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000028341 retrocopy
Homo sapiens ENSG000001695981 retrocopy
Gorilla gorilla ENSGGOG000000134521 retrocopy
Macaca mulatta ENSMMUG000000151741 retrocopy
Ornithorhynchus anatinus ENSOANG00000013652 5 retrocopies



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