RetrogeneDB ID:

retro_rnor_2726

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:9:34617178..34618696(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Wbp11
Ensembl ID:ENSRNOG00000005505
Aliases:None
Description:WW domain-binding protein 11 [Source:UniProtKB/Swiss-Prot;Acc:Q5PQQ2]


Retrocopy-Parental alignment summary:






>retro_rnor_2726
ATAAACCCATACTTTGTTGCCATCAGGATCCCTCAGCATGTGGAAGTAGAGAACACCCCTTTGCCAGCCATACTGCATGG
TCCTTCCACCATCTTGATTCAGGAATTCTGCTTCCAGGTGCCCAGCCTGCATCCATCCTGAGGAAAACCTCATCATACAG
GCCTCCAATTTGAGCAGTTTCTAACCTTCCTCCCTAGGACATGGTGTCCCACTTTTGCCTCCTGGCAACAAATCACCTTG
CCCTCTACCTGGCTCACCACTTCCTCAAGGTCTGCAGATGGATGACCCTCAACTGGGCTTTGCTCTAGATCTCCCTTCTC
AGAGGTGAGATGAGGACATGCAGTACAGATCAGAATGTGCTAAGTGTAACCATGATGATGATGATGTGCCCCAGTGAAGA
AAACCACTATCCCTATCCTGAGGACATGGACAAGGACAAACCTGATGACAGTACTAAAACCAGCGACACTGACAGATCTG
ATGAGTTCATGCACCATGATGACAATGGGCACACCACACAACGTTGAGGAGAAATCAGGTCTCAGTGTCGGATTTGCTGT
TACATCTGGAAAGTCCAGAAGGAAGAACAAGCAGGAGCTGACTCGTCTTGAAGCCATGATGCTTCAAATAGCAGCTCAGG
AAATTCCTGAGGAAGGACGGGTAGTAGAGGAATTTTCAGAGGAGGATGATGGCAAAGACTGATGGTTCTGAAGCAGATAG
CAATCGAAAAGGCAGCATAAAGAAGATTCCCACTCTGATGGCACATTCGCTGCCTCTTCACAGCAGTTGGCTCCTCCATA
GTCTGTTCCTCCTTCTCAGATACAAGGACCTAACCTTTCAGGACGGCTACCTCTTGTACCACCACCTGCCCCACCGTTAC
CTCCTGGGTCACCTACCAGATTTCCTCCTCGGTCATCCCTAGGGGTTCCTCCATTCCTGAAACCACCCCTAATGCCAGGA
ATATGAGGTAATTTACCATAAATTTACCTCCAGGACTACCACCAGGCCGAACTTCTGGCCCTCCCCGAGATCTGCCCTCT
AACCTTTTCCTGGAGGACCTCCACCAAGACTACCTCCTCCTATACCTCCAGCTATCCTTCCTCCTCATCTTGGCATGATA
TGCCAACCATTGATGCCTTCTCTTGGACCTGTCCCACCTGGGTTTTTCCCACGAGCTCCCTTGCCCAACTCAGGGGTGTT
GAGTGCCACAACCAGCCCCATTCAGTGACTGAAAGCAGATGATGTAGGTGCAGCCACGGTGGAGAAGAAAGCCACAGTGA
CCATCAGTGCCAACCCCAGATCCCCAGTTCCAAGGCAGAGGTCACATAGTTTGTGCCCACTGCACTCAGAGTGTGCCTGG
AAAATAAGGGGGTGACTGCTGTTCCTCAAAGGTCAGAGGATGACTCTGTTGTGCCTGTTGCCGAGGCAGCCCCCAGGTCT
GGTCCTTCAGTTCCTGTCTCAGTACAAACTATGGCCAATGTTTATGAAGCATTCATGAAAGAGGTGGAAGGGCTGCTA

ORF - retro_rnor_2726 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 62.64 %
Parental protein coverage: 81.28 %
Number of stop codons detected: 7
Number of frameshifts detected 9


Retrocopy - Parental Gene Alignment:

ParentalLSQYFDAVKNAQHVEVESIPLPDMPHAPSNILIQD-IPLPGAQPPSILKKTSAYGPPTRAVSILP-LLGH
...YF.A....QHVEVE..PLP...H.PS.ILIQ..I.LPGAQP.SIL.KTS.Y.PP..AVS.LP..LGH
RetrocopyINPYFVAIRIPQHVEVENTPLPAILHGPSTILIQE<ILLPGAQPASILRKTSSYRPPI*AVSNLP<SLGH
ParentalGVPRLPPGRKPPGPPPGPPPPQVLQMYGRKVGFALDLPPRRRDEDMLYSPELAQRGHDDD-MSSTSEDDG
GVP.LPPG.K.P.P.PG.P.PQ.LQM.....GFALDLP..R.DEDM.Y..E.A...H.DD.M...SE...
RetrocopyGVPLLPPGNKSPCPLPGSPLPQGLQMDDPQLGFALDLPSQR*DEDMQYRSECAKCNH-DD>MMCPSEENH
ParentalYPEDMDQDKHDDSTEDSDTDRSDAESDGDEFGHRDDSERDNTE-EKKSGLSVRFADMPGKSRKKKKNMKE
YP...D.DK..D...DS.T..SD.....DEF.H.DD........E.KSGLSV.FA...GKSR.K.K...E
RetrocopyYPYPEDMDK--DKPDDS-TKTSDTDRS-DEFMHHDDNGHTTQR>EEKSGLSVGFAVTSGKSRRKNK--QE
ParentalLTPLQAMMLRMAGQEIPEEGREVEEFSEEEDDDD-SEDSEAEK-PSQKQHKEDSHADGSSAASSQQQAPP
LT.L.AMML..A.QEIPEEGR.VEEFSEE.DD......SEA....S..QHKEDSH.DG..AASSQQ.APP
RetrocopyLTRLEAMMLQIAAQEIPEEGRVVEEFSEE-DDGK>TDGSEADS<QSKRQHKEDSHSDGTFAASSQQLAPP
ParentalQAVPPSQIQAPPMPGPPPLGPPPAPPLRPPGPPTGLPPGPPPGAPPFLRPPGMPGIRGPLPRL-LPPGPP
..VPPSQIQ.P...G..PL.PPPAPPL.PPG.PT..PP....G.PPFL.PP.MPGI.G.LP...LPPG.P
Retrocopy*SVPPSQIQGPNLSGRLPLVPPPAPPL-PPGSPTRFPPRSSLGVPPFLKPPLMPGI*GNLP*I<LPPGLP
ParentalPGRPPGPPPGPPPGL-PPGPPPRGPPPRLPPPAPPGIPPPRPGMMRPPLVPPLGPAPPGLFPPAPLPNPG
PGR..GPP...P..L..PG.PP....PRLPPP.PP.I.PP..GM...PL.P.LGP.PPG.FP.APLPN.G
RetrocopyPGRTSGPPRDLPSNL<FPGGPP----PRLPPPIPPAILPPHLGMICQPLMPSLGPVPPGFFPRAPLPNSG
ParentalVLSAPPSLIQRPKADDASAATIEKKATATISA-KPQITNPKAEVTRFVPTALRVRRENKGATAVPQRRSE
VLSA..S.IQ..KADD..AAT.EKKAT.TISA..PQI...KAEVT.FVPTALRV..ENKG.TAVPQ.RSE
RetrocopyVLSATTSPIQ*LKADDVGAATVEKKATVTISA<QPQIPSSKAEVT*FVPTALRVCLENKGVTAVPQ-RSE
ParentalEDSAVPVAKAAPRSGPSVPVSVQTKDDVYEAFMKEMEGLL
.DS.VPVA.AAPRSGPSVPVSVQT...VYEAFMKE.EGLL
RetrocopyDDSVVPVAEAAPRSGPSVPVSVQTMANVYEAFMKEVEGLL

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
SRP017611_brain 0 .00 RPM 0 .00 RPM
SRP017611_kidney 0 .00 RPM 0 .07 RPM
SRP017611_liver 0 .00 RPM 0 .00 RPM

ChIP-Seq - click to see more details

Rattus norvegicus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_rnor_2726 retrocopy.

TSS - click to see more details

Rattus norvegicus was not studied using FANTOM5 data.

Lab - click to see more details

retro_rnor_2726 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_2726 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 22 parental genes, and 34 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000147591 retrocopy
retro_btau_20,
Canis familiaris ENSCAFG000000129262 retrocopies
retro_cfam_1369, retro_cfam_1911,
Callithrix jacchus ENSCJAG000000216111 retrocopy
retro_cjac_1737,
Homo sapiens ENSG000000844632 retrocopies
retro_hsap_1878, retro_hsap_4719,
Gorilla gorilla ENSGGOG000000044483 retrocopies
retro_ggor_1375, retro_ggor_1711, retro_ggor_2932,
Macropus eugenii ENSMEUG000000139711 retrocopy
retro_meug_1952,
Myotis lucifugus ENSMLUG000000152161 retrocopy
retro_mluc_1074,
Macaca mulatta ENSMMUG000000192991 retrocopy
retro_mmul_1329,
Monodelphis domestica ENSMODG000000179491 retrocopy
retro_mdom_143,
Mustela putorius furoENSMPUG000000116191 retrocopy
retro_mputfur_280,
Mus musculus ENSMUSG000000302161 retrocopy
retro_mmus_2740,
Nomascus leucogenys ENSNLEG000000039261 retrocopy
retro_nleu_2651,
Oryctolagus cuniculus ENSOCUG000000171771 retrocopy
retro_ocun_974,
Otolemur garnettii ENSOGAG000000105181 retrocopy
retro_ogar_207,
Ochotona princeps ENSOPRG000000150083 retrocopies
retro_opri_107, retro_opri_1159, retro_opri_678,
Pongo abelii ENSPPYG000000043233 retrocopies
retro_pabe_1558, retro_pabe_2099, retro_pabe_3663,
Pan troglodytes ENSPTRG000000047243 retrocopies
retro_ptro_1260, retro_ptro_1637, retro_ptro_3136,
Rattus norvegicus ENSRNOG00000005505 3 retrocopies
retro_rnor_1287, retro_rnor_2726 , retro_rnor_741,
Rattus norvegicus ENSRNOG000000495931 retrocopy
retro_rnor_740,
Sorex araneus ENSSARG000000070851 retrocopy
retro_sara_753,
Sarcophilus harrisii ENSSHAG000000166491 retrocopy
retro_shar_81,
Tupaia belangeri ENSTBEG000000033941 retrocopy
retro_tbel_2213,


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