RetrogeneDB ID:

retro_rnor_741

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:10:34145846..34146913(-)
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_741
CCAGATATGTAAAAGGAATTGAGGAAGCTAGAAGTGGAATATGAACAGAAGAGAGCTCAACTGAGCCGGTACTTTGATGC
CGTCAAGAATGCTCAGCTCATGGAAGTAGAGAGCATCCCTTTGCCAGAAATGCCACGTGATCCTTTGAACATCTCGATCC
ATGACATTCCTCTTCATGGTGCCCAGCCACCCTACATCCTAAAGAAAACTCAGGATATGAGCCTCCAACATGAGCAGTTT
CTGTCCTTCCTCCCCTGGGACATGATATTCCACGTTTGGCTCCTGGCAGAAAGTTGCCAGGCCTTCCACTTGGCCTACCT
CCTCCTCAACTTCTGCTGATGTACGTCCATGAAGTGGTCTTTGCTCTAGATCTTCTTCTTCAAAGCAAGATGAAGACAAG
CTACACAGTCCAAAACTTGCTCAGTGGGGTTATGATGACAACATGTCCAGCACCAGTGAATAGGATGGCTATCCTGAGGA
CATGTGTCAGGATAATCATGATGACAGTACTGAGGACAGTGACACTGACAGATTTGACACAGAGAGTGACTGGGAAGAGT
TAAAGCACACTCATTGACTGTGAGCATGACAACGCTGAGGAGAAGTCAGATTTGAGGGTCCGATTTGCTGATATGCCTGG
AAAATCAAGGAAGACCTTGAAGGGGCTGACTACTGTTCAAGCCATAATGCTGCAAATGGCAGATAAGGAAATCCCTGAGG
AAGAACAGGAAGTGGGGGTATTTTCAGAGGAGGAGGAGGATGACAATGATGACAACTCTGATGATTCTGAAGCAGAGAAG
CAATCACAAAAGCAGCATGAAGAAGATCCCCACTCTGATGGCTCCTCTGCTGCCTCTTCACAGCAGCAGGCTCCTCCACA
GTCCATTCCTCTTTCTCAGCTACACACACCTCCCAAGCTAGGACCACCACCTCTTGGACCACCACCTGCCTCATGGGTAA
GGCCTTCTGGACCACTTACAGGTCTTCTTCCTGGGCCACCTGCAGGGTCTCCTCCATTCCTGACACAACCTGGAATGCCT
GTAATCCAAGGGCCTTTACCACGACTT

ORF - retro_rnor_741 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.25 %
Parental protein coverage: 55.69 %
Number of stop codons detected: 3
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalPDIYKELRKLEVEYEQKRAQLSQYFDAVKNAQHVEVESIPLPDMPHAPSNILIQDIPLPGAQPPSILKKT
PD..KELRKLEVEYEQKRAQLS.YFDAVKNAQ..EVESIPLP.MP..P.NI.I.DIPL.GAQPP.ILKKT
RetrocopyPDM*KELRKLEVEYEQKRAQLSRYFDAVKNAQLMEVESIPLPEMPRDPLNISIHDIPLHGAQPPYILKKT
Parental-SAYGPPTRAVSILPLLGHGVPRLPPGRKPPGPPPGPPPPQVLQMYGRKVGFALDL-PPRRRDEDMLYSP
.S.Y.PPT.AVS.LP.LGH..PRL.PGRK.PG.P.G.PPPQ.L.MY...V.FALDL......DED.L.SP
Retrocopy<SGYEPPT*AVSVLPPLGHDIPRLAPGRKLPGLPLGLPPPQLLLMYVHEVVFALDL<SSSKQDEDKLHSP
ParentalELAQRGHDDDMSSTSEDDGYPEDMDQDKHDDSTEDSDTDRSDAESDGDEFGHRD-DSERDNTEEKKSGLS
.LAQ.G.DD.MSSTSE.DGYPEDM.QD.HDDSTEDSDTDR.D.ESD..E..H...D.E.DN.EEK.S.L.
RetrocopyKLAQWGYDDNMSSTSE*DGYPEDMCQDNHDDSTEDSDTDRFDTESDWEELKHTH>DCEHDNAEEK-SDLR
ParentalVRFADMPGKSRKKKKNMKELTPLQAMMLRMAGQEIPEEGREVEEFSEEED---DDDSEDSEAEKPSQKQH
VRFADMPGKSR...K..K.LT..QA.ML.MA..EIPEE..EV..FSEEE....DD.S.DSEAEK.SQKQH
RetrocopyVRFADMPGKSR---KTLKGLTTVQAIMLQMADKEIPEEEQEVGVFSEEEEDDNDDNSDDSEAEKQSQKQH
ParentalKEDSHADGSSAASSQQQAPPQAVPPSQIQAPPMPGPPPLGPPPAPPLRPPGPPTGLPPGPPPGAPPFLRP
.ED.H.DGSSAASSQQQAPPQ..P.SQ...PP..GPPPLGPPPA...RP.GP.TGL.PGPP.G.PPFL..
RetrocopyEEDPHSDGSSAASSQQQAPPQSIPLSQLHTPPKLGPPPLGPPPASWVRPSGPLTGLLPGPPAGSPPFLTQ
ParentalPGMPGIRGPLPRL
PGMP.I.GPLPRL
RetrocopyPGMPVIQGPLPRL

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_741 retrocopy.

TSS - click to see more details

Rattus norvegicus was not studied using FANTOM5 data.

Lab - click to see more details

retro_rnor_741 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_741 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,




Copyright © RetrogeneDB 2014-2017