RetrogeneDB ID:

retro_ggor_2034

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:4:64844321..64846786(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GLDC
Ensembl ID:ENSGGOG00000004507
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2034
TCTGCGGCTGCAGAGGCGCTGCAGCTGTGCTACAGACACAACAAGAGGAGGAAATTTTTTGTTGACCCCCGTTGCCACCC
ACAGACAATAGCTGTTGTCCATACTCGAGCCAAATATACTGGAGTCCTCATTGAGCTGAAGTTACCCTGTGAAATGGACT
TCAGTGGAAAAGATGTCAGCGGAGTGTTGTTCCAGTACCCAGACACGGAGGGGAAGGTGGAAGACTTTACGGAACTCGTG
GAGAGAGCTCATCAGAGTGGGAGCCTGGCCTGCTGTGTGTGCTACTGACCTTTTAGCTTTGTGCATCTTGAGGCCACCGG
GAGAATTTGGGGTAGACATCGCCTTGGGCAGCTCCCAGAGATTTGGAGTGCCACTGGGTTATGGGGGACCCCACACAGCA
TTTTTTGCTGTCCGAGAAAGCTTGGTGAGAATGATGCCTGGAAGAATGGTGGGGGCAACAAGAGATGCCACTGGGAAAGA
AGTGTATTGTCTTGCTCTTCAAACCAGGGAGCAACACATTCAGAGAGACAAGGCTACCAGCAACATCTGTACAGCTCAGG
CCCTCTTGGCGAATATGGCAGCCATGTTTGCAATCTACCATGGTTCTCATGGGCTGGAGCATATTGCTAGGAGGGTACAT
AATGCCACTTTGATTTTGTCAGAAGGTCTCAAGCGAGCAGGGCATCAACTCCAGCATGACCTGTTCTTTGATACCTTGAA
GATTCAGTGTGGCTGCTCAGTGAAGGAGGTCTTGGGCAGGGCCGCTCAGCGGCAGATCAATTTTCGGCTTTTTGAGGATG
GCACACTTGGTATTTCTCTTGATGAAACAGTCAGTGAAAAAGATCTGGACGATTTGTTGTGGATCTTTGTTTGTGAGTCA
TCTGCAGAACTGGTTGCTGAAAGCGTGGGAGAGGAGTGCAGAGGTATTCCAGGGTCTGTGTTCAAGAGGACCAGCCTGTT
CCTCACCCATCAAGTGTTCAACAGCTACCACTCTGAAACAAATATTGTCCGGTATATGGAGAAACTGGAAAATAAAGACA
TTTCCCTTGTTCACAGCATGATTCCACTGGGATCCTGCACCATGAAACTGAACAGTTTGTCTGAACTCGCACCTATCACA
TGGAAAGAATTTGCAAACATCCACCCCTTTGTGCCTCTGGACCAAGCTCAAGGATATCAGCAGCTTTTCTGAGAGCTTGA
GAAGGATTTGTGTGAACTCACAGGTTATGACCAGGTCTGTTTCCAGCCAAACAGCAGAGCCCAGGGAGAGTATGCTGGAC
TGGCCACTATCCGAGCCTACTTAAACCAGAAAGGAGAGGGGCACAGAACGGTTTGCCTCATTCTGAAATCAACACATGGG
ACCAACCCAACAAGTGCCCACATGGCAGGCATGAAGATTCAGCCTGTGGAGGTGGATAAATGTGGGAATATCAATGCAGT
TCACCTCAAGGCCATCGTGGATAAGCACAAGGAGAACCTAGCAGCCATCATGATTACATACCCATCCACCATTGGGGTGT
TTGAAGAGAACATCAGTGACGTGTGTGACCTCATCCATCAACATGGAGGATAGGTCTACCTAGACGGGGCAAATATGAAC
GCTCAGGTGGGAATCTGTCGCCCTGGAGACTTTGGGTCTGATATCTCGCACCTAAATCTTCACCAGACCTTCTGCATTCC
CCACAGAGGAGGTGGTCCTGGCATGGGGCCCATTGGAGTAAGAAATACCTTGCCCCGTTTTTGCCCAATCATCCCATCAT
TTCACTAAAGCGGAATGAAGATGCCTGTCCTGTGGGAACCGTCAGTGTGGCCCCATGGGGCTCCAGTTCCATCTTGCCCA
TTTCCTGGGCTTATATCAAGATGATGGGAGGCAAGGGCCTTAAACAAGCCATGGAAACTGCGATATTAAATGCCAACTAC
ATGGCCAAGCGATTAGAAAAACACTACAGAATTCTTTTCAGGGGTGCAAGAGGTTATGTGGGTCATGAATTTATTTTGGA
CACGAGACCCTTCAAAAAGTCTGCAAATATTGAGGCAGTGGATGTGGCCAAGAGACTCCAGGATTATGGATTTCACACCC
CTATCATGCCCTGGCCTGTGGCAGGGACCCTCATGGTTGAGCCAACTGAGTCGGAGGACAAGGCAGAGCTGGACAGATTC
TGTGATGCCATGACCAGCATTCGGCAGGAAATTGCTGACATTGAGGAGGGCCGCATCGACCCCAGGGTCAATCCACTGAA
GATGTCTCCACACTCCCTGACCTGCGTTATGTATTCCCACTGGGACCGGCCTTATATTCCAGAGAGGTGGCAGCATTCCC
ACTCCCCTTCGTGAAACCAGAGAACAAATTCTGGCCAATGATTGCCCGGATTGATGACATATATGGAGATCAGCACCTGG
TTTGTACCTGCCCACCCATGGAAGTTTATGAGTCGCCATTTTCTGAACAAAAGAGGGCCTCTTCT

ORF - retro_ggor_2034 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.7 %
Parental protein coverage: 80.37 %
Number of stop codons detected: 2
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalTAAAEALQLCYRHNKRRTFFVDPRC-PQTIAVVQTRAKYTGVLIELKLPCEMDFSGKDVSGVLFQYPDTE
.AAAEALQLCYRHNKRR.FFVDPRC.PQTIAVV.TRAKYTGVLIELKLPCEMDFSGKDVSGVLFQYPDTE
RetrocopySAAAEALQLCYRHNKRRKFFVDPRCHPQTIAVVHTRAKYTGVLIELKLPCEMDFSGKDVSGVLFQYPDTE
ParentalGKVEDFTELVERAHQSGSLA-C-CATDLLALCILRPPGEFGVDIALGSSQRFGVPLGYGGPHAAFFAVRE
GKVEDFTELVERAHQSGSLA.C.CATDLLALCILRPPGEFGVDIALGSSQRFGVPLGYGGPH.AFFAVRE
RetrocopyGKVEDFTELVERAHQSGSLACC>CATDLLALCILRPPGEFGVDIALGSSQRFGVPLGYGGPHTAFFAVRE
ParentalSLVRMMPGRMVGVTRDATGKEVYRLALQTREQHIRRDKATSNICTAQALLANMAAMFAIYHGSHGLEHIA
SLVRMMPGRMVG.TRDATGKEVY.LALQTREQHI.RDKATSNICTAQALLANMAAMFAIYHGSHGLEHIA
RetrocopySLVRMMPGRMVGATRDATGKEVYCLALQTREQHIQRDKATSNICTAQALLANMAAMFAIYHGSHGLEHIA
ParentalRRVHNATLILSEGLKRAGHQLQHDLFFDTLKIQCGCSAKEVLGRAAQRQINFRLFEDGTLGISLDETVNE
RRVHNATLILSEGLKRAGHQLQHDLFFDTLKIQCGCS.KEVLGRAAQRQINFRLFEDGTLGISLDETV.E
RetrocopyRRVHNATLILSEGLKRAGHQLQHDLFFDTLKIQCGCSVKEVLGRAAQRQINFRLFEDGTLGISLDETVSE
ParentalKDLDDLLWIFGCESSAELVAESMGEECRGIPGSVFKRTSPFLTHQVFNSYHSETNIVRYMKKLENKDISL
KDLDDLLWIF.CESSAELVAES.GEECRGIPGSVFKRTS.FLTHQVFNSYHSETNIVRYM.KLENKDISL
RetrocopyKDLDDLLWIFVCESSAELVAESVGEECRGIPGSVFKRTSLFLTHQVFNSYHSETNIVRYMEKLENKDISL
ParentalVHSMIPLGSCTMKLNSSSELAPITWKEFANIHPFVPLDQAQGYQQLFRELEKDLCELTGYDQVCFQPNSG
VHSMIPLGSCTMKLNS.SELAPITWKEFANIHPFVPLDQAQGYQQLF.ELEKDLCELTGYDQVCFQPNS.
RetrocopyVHSMIPLGSCTMKLNSLSELAPITWKEFANIHPFVPLDQAQGYQQLF*ELEKDLCELTGYDQVCFQPNSR
ParentalAQGEYAGLATIRAYLSQKGEGHRTVCLIPKSAHGTNPASAHMAGMKIQPVEVDKYGNIDAVHLKAMVDKH
AQGEYAGLATIRAYL.QKGEGHRTVCLI.KS.HGTNP.SAHMAGMKIQPVEVDK.GNI.AVHLKA.VDKH
RetrocopyAQGEYAGLATIRAYLNQKGEGHRTVCLILKSTHGTNPTSAHMAGMKIQPVEVDKCGNINAVHLKAIVDKH
ParentalKENLAAIMITYPSTNGVFEENISDVCDLIHRHGGQVYLDGANMNAQVGICRPGDFGSDVSHLNLHKTFCI
KENLAAIMITYPST.GVFEENISDVCDLIH.HGG.VYLDGANMNAQVGICRPGDFGSD.SHLNLH.TFCI
RetrocopyKENLAAIMITYPSTIGVFEENISDVCDLIHQHGG*VYLDGANMNAQVGICRPGDFGSDISHLNLHQTFCI
ParentalPHGGGGPGMGPIGV-KKHLAPFLPNHPIISLKRNEDACPVGTVSAAPWGSSSILPISWAYIKMMGGKGLK
PH.GGGPGMGPIGV.KK.LAPFLPNHPIISLKRNEDACPVGTVS.APWGSSSILPISWAYIKMMGGKGLK
RetrocopyPHRGGGPGMGPIGV<KKYLAPFLPNHPIISLKRNEDACPVGTVSVAPWGSSSILPISWAYIKMMGGKGLK
ParentalQATETAILNANYMAKRLEKHYRILFRGARGYVGHEFILDTRPFKKSANIEAVDVAKRLQDYGFHAPTMSW
QA.ETAILNANYMAKRLEKHYRILFRGARGYVGHEFILDTRPFKKSANIEAVDVAKRLQDYGFH.P.M.W
RetrocopyQAMETAILNANYMAKRLEKHYRILFRGARGYVGHEFILDTRPFKKSANIEAVDVAKRLQDYGFHTPIMPW
ParentalPVAGTLMVEPTESEDKAELDRFCDAMISIRQEIADIEEGRIDPRVNPLKMSPHSLTCVTSSHWDRPYSRE
PVAGTLMVEPTESEDKAELDRFCDAM.SIRQEIADIEEGRIDPRVNPLKMSPHSLTCV..SHWDRPY..E
RetrocopyPVAGTLMVEPTESEDKAELDRFCDAMTSIRQEIADIEEGRIDPRVNPLKMSPHSLTCVMYSHWDRPYIPE
Parental-VAAFPLP-FVKPENKFWPTIARIDDIYGDQHLVCTCPPMEVYESPFSEQKRASS
.....P.P.FVKPENKFWP.IARIDDIYGDQHLVCTCPPMEVYESPFSEQKRASS
Retrocopy>GGSIPTP>FVKPENKFWPMIARIDDIYGDQHLVCTCPPMEVYESPFSEQKRASS

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

(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 6 .57 RPM
SRP007412_cerebellum 0 .00 RPM 5 .24 RPM
SRP007412_heart 0 .00 RPM 0 .00 RPM
SRP007412_kidney 0 .08 RPM 36 .43 RPM
SRP007412_liver 0 .00 RPM 3 .46 RPM
SRP007412_testis 0 .10 RPM 3 .94 RPM

ChIP-Seq - click to see more details

Gorilla gorilla was not studied using ChIP-Seq data.

EST - click to see more details

Gorilla gorilla was not studied using EST data.

TSS - click to see more details

Gorilla gorilla was not studied using FANTOM5 data.

Lab - click to see more details

retro_ggor_2034 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2034 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2932
Pan troglodytes retro_ptro_2060
Pongo abelii retro_pabe_2521
Parental genes homology:
Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species Parental gene accession Retrocopies number
Homo sapiens ENSG000001784451 retrocopy
retro_hsap_2932,
Gorilla gorilla ENSGGOG00000004507 1 retrocopy
retro_ggor_2034 ,
Macropus eugenii ENSMEUG000000017341 retrocopy
retro_meug_2056,
Pongo abelii ENSPPYG000000192251 retrocopy
retro_pabe_2521,
Pan troglodytes ENSPTRG000000293471 retrocopy
retro_ptro_2060,


Copyright © RetrogeneDB 2014-2017