RetrogeneDB ID:

retro_pabe_366

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:1:20076409..20076676(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HMGN2
Ensembl ID:ENSPPYG00000001682
Aliases:None
Description:non-histone chromosomal protein HMG-17 [Source:RefSeq peptide;Acc:NP_001125775]


Retrocopy-Parental alignment summary:






>retro_pabe_366
AAGAGAAAGACTGAAGGGGATACTAAAGGAGGAGATAAAGGCAAGGTGAAGGACCAACCACAGAGAAGATCCGCGACGTT
GTCTGCTAAACCTGCTCCTCCAAACCCAGAGCCCAAGCCTAAAAAGGCCCCTGCGTGGAATGGAGAGACAGTACCCAAAG
GGAAAAAGGGAAAAGCTGTTGCTGGCAAGGAGGGGAATAACCCTGCAGAAAATGGAGATGCCAAAACAGACCAGGCACAG
AAAGCTGAAGGTTCTGGAGATGCCAAG

ORF - retro_pabe_366 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.52 %
Parental protein coverage: 97.78 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalKRKAEGDAKG-DKAKVKDEPQRRSARLSAKPAPPKPEPKPKKAPAKKGEKVPKGKKGKADAGKEGNNPAE
KRK.EGD.KG.DK.KVKD.PQRRSA.LSAKPAPP.PEPKPKKAPA..GE.VPKGKKGKA.AGKEGNNPAE
RetrocopyKRKTEGDTKGGDKGKVKDQPQRRSATLSAKPAPPNPEPKPKKAPAWNGETVPKGKKGKAVAGKEGNNPAE
ParentalNGDAKTDQAQKAEGAGDAK
NGDAKTDQAQKAEG.GDAK
RetrocopyNGDAKTDQAQKAEGSGDAK

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 13 .49 RPM
SRP007412_cerebellum 0 .00 RPM 12 .52 RPM
SRP007412_heart 0 .00 RPM 12 .19 RPM
SRP007412_kidney 0 .00 RPM 20 .78 RPM
SRP007412_liver 0 .00 RPM 23 .01 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_366 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_366 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_366 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_318

Parental genes homology:
Parental genes homology involve 9 parental genes, and 104 retrocopies.

Species Parental gene accession Retrocopies number
Dipodomys ordii ENSDORG000000017873 retrocopies
Felis catus ENSFCAG000000128123 retrocopies
Gorilla gorilla ENSGGOG0000000097111 retrocopies
Macropus eugenii ENSMEUG000000109668 retrocopies
Mus musculus ENSMUSG000000030382 retrocopies
Otolemur garnettii ENSOGAG0000003257114 retrocopies
Pongo abelii ENSPPYG00000001682 16 retrocopies
Tarsius syrichta ENSTSYG0000001151942 retrocopies
Tursiops truncatus ENSTTRG000000056815 retrocopies



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