RetrogeneDB ID:

retro_ggor_2656

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:8:48649047..48649504(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PDCD10
Ensembl ID:ENSGGOG00000008621
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2656
GTAAATCTGTCTGCAGCTCAGATACTGAGAGTGGCTTTCATTAAGGCCAATAAAGGAAACCCTGGTCTCACACAATACAT
TGTTTTGGCAACTTTAGAGAAAAAAAATATAAACATTAAGATCACAGGATTTCTTCTTATGGCAGCTGTTAATGTATAAT
AGTAGATAATTGAATGACTAGAGCCAGAATTCCAGGATGTAAATGAAAGTCACAAGTACTTATACAAATTCTCAGTAAGT
TTCCAGTGAGCTCAATGACAGAGTGAGGATTCTGTAGACAATTAAGTATATAAAGAGTGAAATAAAAGAGCTCGATATAG
TGAATAATGTCTTCAAGAAATATCAATACCAGAACTACGGGGCACTTGAACACCAAAAGAAAGTATTTTTAAAGTATTCT
AAAAGTTTCAATGGTATTCTGAAAACTTATTTCAAAGATGACAAAGCAACAAATGTT

ORF - retro_ggor_2656 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 65.61 %
Parental protein coverage: 73.11 %
Number of stop codons detected: 5
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalVNLSAAQTLRAAFIKAEKENPGLTQDIIMKILEKKSVEVNFTESLLRMAADDVEEYMIERPEPEFQDLNE
VNLSAAQ.LR.AFIKA.K.NPGLTQ.I....LE........T..LL.MAA..V....IE..EPEFQD.NE
RetrocopyVNLSAAQILRVAFIKANKGNPGLTQYIVLATLEXXXINIKITGFLL-MAAVNV***IIE*LEPEFQDVNE
Parental-KARALKQILSKIP-DEINDRVRFLQTIKDIASAIKELLDTVNNVFKKYQYQNRRALEHQKKEFVKYSKS
.K...L.QILSK.P..E.NDRVR.L.TIK.I.S.IKEL.D.VNNVFKKYQYQN..ALEHQKK.F.KYSKS
Retrocopy<KSQVLIQILSKFP<SELNDRVRIL*TIKYIKSEIKEL-DIVNNVFKKYQYQNYGALEHQKKVFLKYSKS
ParentalFSDTLKTYFKDGKAINV
F...LKTYFKD.KA.NV
RetrocopyFNGILKTYFKDDKATNV

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 15 .92 RPM
SRP007412_cerebellum 0 .00 RPM 9 .06 RPM
SRP007412_heart 0 .00 RPM 4 .00 RPM
SRP007412_kidney 0 .00 RPM 18 .89 RPM
SRP007412_liver 0 .00 RPM 10 .60 RPM
SRP007412_testis 0 .00 RPM 39 .99 RPM
Gorilla gorilla was not studied using ChIP-Seq data.
Gorilla gorilla was not studied using EST data.
Gorilla gorilla was not studied using FANTOM5 data.
retro_ggor_2656 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2656 has 4 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_3953
Pan troglodytes retro_ptro_2683
Pongo abelii retro_pabe_3257
Macaca mulatta retro_mmul_2288

Parental genes homology:
Parental genes homology involve 24 parental genes, and 38 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000021811 retrocopy
Bos taurus ENSBTAG000000317092 retrocopies
Canis familiaris ENSCAFG000000145692 retrocopies
Callithrix jacchus ENSCJAG000000027632 retrocopies
Dasypus novemcinctus ENSDNOG000000158541 retrocopy
Homo sapiens ENSG000001142091 retrocopy
Gorilla gorilla ENSGGOG00000008621 1 retrocopy
retro_ggor_2656 ,
Loxodonta africana ENSLAFG000000068231 retrocopy
Microcebus murinus ENSMICG000000070041 retrocopy
Myotis lucifugus ENSMLUG000000169781 retrocopy
Macaca mulatta ENSMMUG000000059382 retrocopies
Mustela putorius furoENSMPUG000000170751 retrocopy
Mus musculus ENSMUSG000000278351 retrocopy
Nomascus leucogenys ENSNLEG000000048741 retrocopy
Otolemur garnettii ENSOGAG000000138871 retrocopy
Oreochromis niloticus ENSONIG000000055531 retrocopy
Procavia capensis ENSPCAG000000103851 retrocopy
Pongo abelii ENSPPYG000000297501 retrocopy
Pan troglodytes ENSPTRG000000155981 retrocopy
Sarcophilus harrisii ENSSHAG000000054431 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000284423 retrocopies
Tupaia belangeri ENSTBEG000000002409 retrocopies
Tarsius syrichta ENSTSYG000000007081 retrocopy
Tursiops truncatus ENSTTRG000000163151 retrocopy



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