RetrogeneDB ID:

retro_ggor_2044

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:4:88827668..88829255(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:KPNA2
Ensembl ID:ENSGGOG00000027535
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2044
ATGTCTACCAACGAGAATGCTAATATAGCAGTTGCCCGACTTAACAGATTCAAGAACAAGTGAAAAGACAGTACAGAAAT
GGGGTGTCGCAGAATAGAAGTCAATGTGAAGCTGAGGTAAGCTAAGAGGAATGACCAGATGCTGAAGAGGAGAAATGCAA
GCTCATTTCCTGATGTTGCTGCTTCTCCGCTGGAGAAAAACCGCAAAAATCAGGGCACTGTAAATTGGTCTGTTGATGAC
ATTGTCAAAGGCACAAATAGCAACAATGTGGAAAGTCAGCTCCAAACTACTCAAGCTGCCATGAAACTACTTTCTAGAGA
AAAACAGCCCCCCATAGGCAACATAATCTGGACTGGTTTGATTCCAAAATTTGTGTCCTTCTTGAGCAGAACTGATTGTA
GTCCCATTCAGTTTGAATCTGCTTGGGCACTCGCTAACATTGCTTCTGGGACATCAGAATAAACCAAGGCTGTGGTAGAT
GGAGGTGCCATCCCAGCATTCATTTCTCTGTTAGCATCTCCCCATGCTCACATCAGTGAACAAGCTGTATGGGCTCTAGG
AAACATTGCAGGTGATGGTTTAGTTTTCCGAGACTTGGTTATTAAGTATGGTGCAGTTGACCCACTCTTGGCTCTTCTTG
CAGTTCCCGATATGTCATCTTTAGTATGTGGTTACTTATGTCATCTTACCTGGACACTTTCAATCCTCTGCTGCTACAAG
AATCCTGCACCCCCGTTAGATGCTGTTGAGCAAATTCTTTCTACCTTAGTTTGGCTCCTGCATCATGATGATCCAGAAGT
ATTAGCAGATAGCTGTTGGGCTATTTCCTACCTTACTGATGGTCCAAATAAACGAATTGACATGTTCTTGAAAACAGGAG
TTCTGCCCCAACTTGTGAAGCTTCTAGGAGCTTCTGAATTGCCAACTGTGACTCCTGCACTAAGACCCATAGGGAATATT
GTTACTGGTACAGATGAAAAGACTCATGTTGTGATCGATGCAAGAGCACTTGCTGTCTTTCCCAACCTGCTCATCAACCC
CAAAACTAACTTTCAGAAGGAAGGTACATGGACAATGTCAAACATCACAGCTGACCCTCAGGACGAGATACAGCAAGTTG
TGAATCATGGATTAGTCCCGTTCCTCACAATGTTCTCTCTAAGGCAGATTTTAAAGACACAAAAGGAAGCTGTATGGGCC
ATGACCAACCATACCAGTGGTGGAACAGTTGAACTGGCTGTATACCTCATTCATTGTGGCATAATAAAACCATTGATGAA
CCTCTTAACTTCAAAAGATACCAAGGTTATTCTGGTTATCCTGGATGCCATTTCGAACATCTTTCAGGTTGCTGAGAAAC
TAGGTGAAACTGACAAACTTAGTATAATGATTGAAGAATGTGGAGGCTTAGACAAAATTGAGGCTCTACAAAACCATGAA
AATGAGTCTGTGTATAAGGCTTTGTTAAGCTTAATTGAGAAGAATTTCTTGGTAGAGGAAGAGGAAGATCAAAACGCTGT
GCCAGAAACTAACTCTGAAGGCTATACCTTCCAAGTTCAGAATGGGACTCCTGGAACCTTTAACTTT

ORF - retro_ggor_2044 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.12 %
Parental protein coverage: 100. %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMSTNENANTPAARLHRFKNKGKDSTEMRRRRIEVNVELRKAKKDDQMLKRRNVSSFPDDATSPLQENRNN
MSTNENAN...ARL.RFKNK.KDSTEM..RRIEVNV.LR.AK..DQMLKRRN.SSFPD.A.SPL..NR.N
RetrocopyMSTNENANIAVARLNRFKNK*KDSTEMGCRRIEVNVKLR*AKRNDQMLKRRNASSFPDVAASPLEKNRKN
ParentalQGTVNWSVDDIVKGINSSNVENQLQATQAARKLLSREKQPPIDNIIRAGLIPKFVSFLGRTDCSPIQFES
QGTVNWSVDDIVKG.NS.NVE.QLQ.TQAA.KLLSREKQPPI.NII..GLIPKFVSFL.RTDCSPIQFES
RetrocopyQGTVNWSVDDIVKGTNSNNVESQLQTTQAAMKLLSREKQPPIGNIIWTGLIPKFVSFLSRTDCSPIQFES
ParentalAWALTNIASGTSEQTKAVVDGGAIPAFISLLASPHAHISEQAVWALGNIAGDGSVFRDLVIKYGAVDPLL
AWAL.NIASGTSE.TKAVVDGGAIPAFISLLASPHAHISEQAVWALGNIAGDG.VFRDLVIKYGAVDPLL
RetrocopyAWALANIASGTSE*TKAVVDGGAIPAFISLLASPHAHISEQAVWALGNIAGDGLVFRDLVIKYGAVDPLL
ParentalALLAVPDMSSLACGYLRNLTWTLSNLCRNKNPAPPIDAVEQILPTLVRLLHHDDPEVLADTCWAISYLTD
ALLAVPDMSSL.CGYL..LTWTLS.LC..KNPAPP.DAVEQIL.TLV.LLHHDDPEVLAD.CWAISYLTD
RetrocopyALLAVPDMSSLVCGYLCHLTWTLSILCCYKNPAPPLDAVEQILSTLVWLLHHDDPEVLADSCWAISYLTD
ParentalGPNERIGMVVKTGVVPQLVKLLGASELPIVTPALRAIGNIVTGTDEQTQVLIDAGALAVFPSLLTNPKTN
GPN.RI.M..KTGV.PQLVKLLGASELP.VTPALR.IGNIVTGTDE.T.V.IDA.ALAVFP.LL.NPKTN
RetrocopyGPNKRIDMFLKTGVLPQLVKLLGASELPTVTPALRPIGNIVTGTDEKTHVVIDARALAVFPNLLINPKTN
ParentalIQKEATWTMSNITAS-QDQIQQVVNHGLVPFLV-SVLSKADF-KTQKEAVWAVTNYTSGGTVEQIVYLVH
.QKE.TWTMSNITA..QD.IQQVVNHGLVPFL...VLSKADF.KTQKEAVWA.TN.TSGGTVE..VYL.H
RetrocopyFQKEGTWTMSNITADPQDEIQQVVNHGLVPFLT<NVLSKADF>KTQKEAVWAMTNHTSGGTVELAVYLIH
ParentalCGIIEPLVNLLTAKDTKIILVILDAISNIFQAAEKLGETEKLSIMIEECGGLDKIEALQNHENESVYKAS
CGII.PL.NLLT.KDTK.ILVILDAISNIFQ.AEKLGET.KLSIMIEECGGLDKIEALQNHENESVYKA.
RetrocopyCGIIKPLMNLLTSKDTKVILVILDAISNIFQVAEKLGETDKLSIMIEECGGLDKIEALQNHENESVYKAL
ParentalLSLIEKYFSVEEEEDQNVVPETTSEGYTFQVQDGVPGTFNF
LSLIEK.F.VEEEEDQN.VPET.SEGYTFQVQ.G.PGTFNF
RetrocopyLSLIEKNFLVEEEEDQNAVPETNSEGYTFQVQNGTPGTFNF

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 22 .06 RPM
SRP007412_cerebellum 0 .00 RPM 7 .49 RPM
SRP007412_heart 0 .00 RPM 2 .66 RPM
SRP007412_kidney 0 .00 RPM 13 .82 RPM
SRP007412_liver 0 .00 RPM 4 .54 RPM
SRP007412_testis 0 .10 RPM 215 .90 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_2044 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2044 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2950
Parental genes homology:
Parental genes homology involve 19 parental genes, and 49 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000184113 retrocopies
retro_amel_1161, retro_amel_1318, retro_amel_440,
Canis familiaris ENSCAFG000000115982 retrocopies
retro_cfam_648, retro_cfam_90,
Cavia porcellus ENSCPOG000000263181 retrocopy
retro_cpor_46,
Dasypus novemcinctus ENSDNOG000000191516 retrocopies
retro_dnov_1184, retro_dnov_1811, retro_dnov_2161, retro_dnov_2279, retro_dnov_379, retro_dnov_693,
Echinops telfairi ENSETEG000000044452 retrocopies
retro_etel_346, retro_etel_347,
Felis catus ENSFCAG000000019362 retrocopies
retro_fcat_1176, retro_fcat_921,
Homo sapiens ENSG000001824811 retrocopy
retro_hsap_2950,
Gorilla gorilla ENSGGOG00000027535 2 retrocopies
retro_ggor_2044 , retro_ggor_2609,
Myotis lucifugus ENSMLUG000000279467 retrocopies
retro_mluc_1034, retro_mluc_1258, retro_mluc_1414, retro_mluc_288, retro_mluc_50, retro_mluc_52, retro_mluc_993,
Macaca mulatta ENSMMUG000000182563 retrocopies
retro_mmul_1140, retro_mmul_1635, retro_mmul_1947,
Monodelphis domestica ENSMODG000000038971 retrocopy
retro_mdom_271,
Mus musculus ENSMUSG000000183621 retrocopy
retro_mmus_229,
Nomascus leucogenys ENSNLEG000000017493 retrocopies
retro_nleu_1052, retro_nleu_1634, retro_nleu_208,
Otolemur garnettii ENSOGAG000000276727 retrocopies
retro_ogar_1044, retro_ogar_1142, retro_ogar_1757, retro_ogar_2008, retro_ogar_464, retro_ogar_477, retro_ogar_936,
Pongo abelii ENSPPYG000000085691 retrocopy
retro_pabe_3501,
Pteropus vampyrus ENSPVAG000000049762 retrocopies
retro_pvam_1321, retro_pvam_1333,
Rattus norvegicus ENSRNOG000000153291 retrocopy
retro_rnor_42,
Sarcophilus harrisii ENSSHAG000000113911 retrocopy
retro_shar_165,
Vicugna pacos ENSVPAG000000018553 retrocopies
retro_vpac_124, retro_vpac_162, retro_vpac_163,


Copyright © RetrogeneDB 2014-2017