RetrogeneDB ID:

retro_ggor_2092

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:4:37374456..37375289(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DDX56
Ensembl ID:ENSGGOG00000012031
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2092
GGAGTAAGTCTCTGCTCTTTGTCAACTCTAGAATGGAGTTACTGGCTACACCTGTTTCTGGAGCAGTTCAGCATCTCCAC
CTGTGTGCTCAATGGAGCACTTCCCCTGCTCTCCAGGTGCCACATCATCTCACAGTTCAACCAAGGCTTCTAGGACTGTG
TCATAGCAACTGATGCTGAAGTCCTGGGGGCCCCAGTCAAGGGCAAGCGTCAGGGCGAGGGGCCAAAGCGGACAAGGCCT
CTAATATGGAGGCAGGTGTGGCCCGGGGCATAGACTTCCACTATGTGTCTGCTGTGCTCAACTTTGATCTTCCCCCCACC
CCCGAGGCCTACATCCATCAAACCGGCAGGACAGTGTGCTACAATCCAGGCATAGTCTTAACCTTTGTGTTGCCCAGGGA
ACAGTCCCACTTGGGCAAGATTGAGGACCTTCTCAGTGAAGAGAACAAGGGCCCCATCCTGCTCCCCTACCAGTTCCGGA
TGGAGAAGATTGAGGGCTTCCGCTATCGCTGCAGGGATGCCATGTGCTCAGTGGCTAAACAGGCCATTCGAGAGGTGAGA
TTGAAGGAGATCAAGGAGGAGCTTCTGCACTCTAAGAAGCTCAAGATGTACTTTGAAGACAACCCTAGGGACCTCCAGGT
GCTGCAGCATGACCTGCCGTTGCACCCCGCGGTGGTGAAGCCCCACCTGGGCCATGTTCCTGACTACCTGGTTCCTACTG
CTCTCCATGGCCTGGTGCACCCTCACAAGAAGCGGAAGAAGCTGTCTTCCTCTCATAGGAAGGCCAAGAGAGCAAAGTCC
CAGAACCCACTGCACAGTTTCAAGCACAAAGGA

ORF - retro_ggor_2092 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.64 %
Parental protein coverage: 51.01 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalGKSLLFVNTLERSYRLRLFLEQFSIPTCVLNGELPLRSRCHIISQFNQGFYDCVIATDAEVLGAPVKGKR
G.SL....TLE.SY.L.LFLEQFSI.TCVLNG.LPL.SRCHIISQFNQGF.DCVIATDAEVLGAPVKGKR
RetrocopyGVSLCSLSTLEWSYWLHLFLEQFSISTCVLNGALPLLSRCHIISQFNQGF*DCVIATDAEVLGAPVKGKR
ParentalRGRGPK-GDKASDPEAGVARGIDFHHVSAVLNFDLPPTPEAYIHRAGRTARANNPGIVLTFVLPTEQFHL
.G.GPK..DKAS..EAGVARGIDFH.VSAVLNFDLPPTPEAYIH..GRT....NPGIVLTFVLP.EQ.HL
RetrocopyQGEGPK<ADKASNMEAGVARGIDFHYVSAVLNFDLPPTPEAYIHQTGRTV-CYNPGIVLTFVLPREQSHL
ParentalGKIEELLSGENRGPILLPYQFRMEEIEGFRYRCRDAMRSVTKQAIREARLKEIKEELLHSEKLKTYFEDN
GKIE.LLS.EN.GPILLPYQFRME.IEGFRYRCRDAM.SV.KQAIRE.RLKEIKEELLHS.KLK.YFEDN
RetrocopyGKIEDLLSEENKGPILLPYQFRMEKIEGFRYRCRDAMCSVAKQAIREVRLKEIKEELLHSKKLKMYFEDN
ParentalPRDLQLLRHDLPLHPAVVKPHLGHVPDYLVPPALRGLVRPHKKRKKLSSSCRKAKRAKSQNPLRSFKHKG
PRDLQ.L.HDLPLHPAVVKPHLGHVPDYLVP.AL.GLV.PHKKRKKLSSS.RKAKRAKSQNPL.SFKHKG
RetrocopyPRDLQVLQHDLPLHPAVVKPHLGHVPDYLVPTALHGLVHPHKKRKKLSSSHRKAKRAKSQNPLHSFKHKG

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 32 .18 RPM
SRP007412_cerebellum 0 .04 RPM 53 .58 RPM
SRP007412_heart 0 .00 RPM 11 .88 RPM
SRP007412_kidney 0 .08 RPM 36 .43 RPM
SRP007412_liver 0 .00 RPM 29 .78 RPM
SRP007412_testis 0 .00 RPM 35 .33 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_2092 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2092 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species Parental gene accession Retrocopies number
Gorilla gorilla ENSGGOG00000012031 1 retrocopy
retro_ggor_2092 ,
Pan troglodytes ENSPTRG000000191471 retrocopy



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