RetrogeneDB ID:

retro_ggor_2686

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:8:122454310..122455186(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CDK5
Ensembl ID:ENSGGOG00000016879
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2686
ATGCAGAAATACAAGAAACTGGAGAAGATTGGGGAAGCCACCTATGGGACAGTGTTCAAGGCCAAAAACCGGGAGACTCA
TGAGATTGTGGCTCTGAAATGGGTGAGGCTGGATGACAATGATGAGGGTGTGCCAAGTTCTGCCCTCCGGGAGATCTGCC
TACTCAAGGAGCTGAAGTACAAGAACATCATCAGGCTTCATGACGTCCTGCACAGCGACAAGAAGCTGACTTTGGTTTTC
AAATTCTGTCACCAGCACCTGAAAAAGTATTTTGACAGTTGCAATGGTGACCTCGATTCTGAGATTGTAAAGTCATTCCT
CTTCCAGCTGCTAAAAGGCCTCGGATTCTGTCACAGCCGCAATGTGCTACGCAGGGACCTGAAGCCCCAGAACCTGCTAA
TAAACAGGAATGGGGAGCTGAAATTGGCTGACTTTGGCCTGTATCGAGCCTTTGGGATCCCCATCTGCTGTTACTGAGCT
GGAGTGGTCACACTGTGGTACCACCCACCAGATGTCTTCTTTGGGGCCAAGCTGTACTCCACGTCCATTGACATGTGGTC
AGCTGGCTGCATCTTTGCAGAGCTGGCCAATGCTGGATGGCCTCTTTTTCCAGGCAATGATGTCGATGACCAGTTGAAGA
GGATCTTCCGGCTGCTAGGGATGCTCACCAAGGAGCAGTGGCCCTCCATGACCAAGCTGCCAGACTATAAGCTGTACCCA
ATGTACCCGGCCACAACATCCCTGGTGAACATCGTGCCCAAACTCAATGCCACAGGGAGGGACCTGCTGCAGAATCTTCT
GAAGTGTAACCCCTTCCAATGTATCTCAGCAGAAGAGGCCCTGCAGCACCCCTACTTTTCCGACTTCTGTCCGCCC

ORF - retro_ggor_2686 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.1 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMQKYEKLEKIGEGTYGTVFKAKNRETHEIVALKRVRLDDDDEGVPSSALREICLLKELKHKNIVRLHDVL
MQKY.KLEKIGE.TYGTVFKAKNRETHEIVALK.VRLDD.DEGVPSSALREICLLKELK.KNI.RLHDVL
RetrocopyMQKYKKLEKIGEATYGTVFKAKNRETHEIVALKWVRLDDNDEGVPSSALREICLLKELKYKNIIRLHDVL
ParentalHSDKKLTLVFEFCDQDLKKYFDSCNGDLDPEIVKSFLFQLLKGLGFCHSRNVLHRDLKPQNLLINRNGEL
HSDKKLTLVF.FC.Q.LKKYFDSCNGDLD.EIVKSFLFQLLKGLGFCHSRNVL.RDLKPQNLLINRNGEL
RetrocopyHSDKKLTLVFKFCHQHLKKYFDSCNGDLDSEIVKSFLFQLLKGLGFCHSRNVLRRDLKPQNLLINRNGEL
ParentalKLADFGLARAFGIPVRCYSAEVVTLWYRPPDVLFGAKLYSTSIDMWSAGCIFAELANAGRPLFPGNDVDD
KLADFGL.RAFGIP..CY.A.VVTLWY.PPDV.FGAKLYSTSIDMWSAGCIFAELANAG.PLFPGNDVDD
RetrocopyKLADFGLYRAFGIPICCY*AGVVTLWYHPPDVFFGAKLYSTSIDMWSAGCIFAELANAGWPLFPGNDVDD
ParentalQLKRIFRLLGTPTEEQWPSMTKLPDYKPYPMYPATTSLVNVVPKLNATGRDLLQNLLKCNPVQRISAEEA
QLKRIFRLLG..T.EQWPSMTKLPDYK.YPMYPATTSLVN.VPKLNATGRDLLQNLLKCNP.Q.ISAEEA
RetrocopyQLKRIFRLLGMLTKEQWPSMTKLPDYKLYPMYPATTSLVNIVPKLNATGRDLLQNLLKCNPFQCISAEEA
ParentalLQHPYFSDFCPP
LQHPYFSDFCPP
RetrocopyLQHPYFSDFCPP

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 .62 RPM 47 .57 RPM
SRP007412_cerebellum 0 .24 RPM 17 .45 RPM
SRP007412_heart 0 .09 RPM 3 .06 RPM
SRP007412_kidney 0 .00 RPM 8 .91 RPM
SRP007412_liver 0 .03 RPM 6 .20 RPM
SRP007412_testis 0 .10 RPM 4 .45 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_2686 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2686 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_4002
Pan troglodytes retro_ptro_2717
Pongo abelii retro_pabe_3290

Parental genes homology:
Parental genes homology involve 8 parental genes, and 8 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000202581 retrocopy
Homo sapiens ENSG000001648851 retrocopy
Gorilla gorilla ENSGGOG000000014041 retrocopy
Gorilla gorilla ENSGGOG00000016879 1 retrocopy
retro_ggor_2686 ,
Nomascus leucogenys ENSNLEG000000041001 retrocopy
Pongo abelii ENSPPYG000000181831 retrocopy
Pan troglodytes ENSPTRG000000198721 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000160681 retrocopy



Copyright © RetrogeneDB 2014-2017