RetrogeneDB ID:

retro_rnor_740

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:10:34117974..34119467(-)
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:ENSRNOG00000049593
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_rnor_740
GTGGGATAAAGATCAACATTCTCCACCAAGAGTGGGCAGTTTAGGAACTCCAACAGACCAAGCCCGAAAAGAAGTCTGAA
ACAGAGAGTTGAAAAGGAACAAAAAAACAATGCATGATGGTCCAAGCTGCGGTTTTGAAGATGAAAGATCCCAAATAGAT
TATCCAGGACATGGAGAAATTGGATGAAATGAAGTTTAACTCAGTACAACGGCCACAGTTGAATGAGAAAGTACTGAAAG
ACAAGCGTAAAACCCTGTGAGAAACCATTGAACAAATTGTACAACTTTATTTTTTTAAAAAAAGACCAGAAAATCCAGAT
ATGTACAAAGAATTGAGAAAACTAGAAAAATATGAACAGAAGAAAACTGAACTGAGCCGATACTTTAATGCCATCAAGAA
CACTCAGATGTGGAAGTAGAGAACATCCCTTTGCCTCATATGCCTTCCAACATCTTGATCAAGGACATTTCTCTTTCTGG
TGCCCAGCTACCCTCTGTCCTGAAGAAAACTCAGCATATGAGCCTCCAACACGAGCAGTTTCTATCCTTCCTCTCATGGG
ACATGGTGTTCCATATTTGTCTCCTGGCAGAAAGCTACCGGGCCCTCCATTTGGCCCACCTCCTCCTCAAGTTCTGCTGA
TGTACAGCCATAAGGTGGGCTTTTCTCTACATCGTCCCCCTTAGAGGCAAGATGAAGACAAGCTACACAGTCTAGACCTT
GCTCAGCAGGGTCATAATGATGACATGTCCAGCACCAGTTACGACTACAGCTATATTGAGGACATGGGTCAGGATAAGCA
CAATGAAGGTACTAAGGACAGTGACACTGACAGACTCGACACTAAGACTGGGATGAGTTCATGCACTGTCAATGATTGTG
AGCAGGAAAACACTGAGGAGAAGTCAGATTTGAGGGTCCGATTTGCTAATATGCCTGGGAAATCAAGGAAGACCATGAAG
GAGCTGACTCCTCTTCAAGCCATGATGCTGTGATCAGCAGGTAAGGAAATCCCTGAGGAAGAACAGGAAGTGGAGGAATT
TTCAGAGGAGGAGGAGGATGACAATGACGACGACTCTGATGATTCTGAAGCAGAGAAGCAATCACAAAAGCAGCAGGAAG
AAGATGCCCACTCTGATGGCTCATCTGCTGCCTCTTCACAGCAGCAGGCTCCTCCACAGTCCATTCCTCTTGGACCACCA
CCTGCCCCACCCTTACAGTCTCCTGGACCACCTACAGGTCTTCTTCCTGGGCCACCTCCAGGGTCTCCTCCATTCCTGAG
ACCACCTGGAATGCCTAGGATCCGAAGGCCTTTACCACAACTTTTACTTCCAGGACCACCACCAGGCTGATCTCTTGGTC
CTCACCTAGGCCCACCTCCAGGTCTGCCCTGTGGGTCCCCTCCTCGAGGACCTCAACAAAGCTACCTCCTCCTGCACCTC
CAGGTATCCCTCCTTGTCATCCTACAATGATGGACACAGCCTTGATGCCTCCC

ORF - retro_rnor_740 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.09 %
Parental protein coverage: 78.32 %
Number of stop codons detected: 7
Number of frameshifts detected 5


Retrocopy - Parental Gene Alignment:

ParentalMGRRSTSSTKSGKFMN-PTDQARKEARKRELKKNKK-QRMMVRAAVLKMKDPKQIIRDMEKLDEMEFNPV
.G.RST.STKSG.F.N.PTDQARKE...RELK.NKK.Q.MMV.AAVLKMKDPK.II.DMEKLDEM.FN.V
RetrocopyVG*RSTFSTKSGQFRN>PTDQARKEV*NRELKRNKK>QCMMVQAAVLKMKDPK*IIQDMEKLDEMKFNSV
ParentalQQPQLNEKVLKDKRKKLRETFERILRLY----EKENPDIYKELRKLEVEYEQKRAQLSQYFDAVKNAQ-H
Q.PQLNEKVLKDKRK.L.ET.E.I..LY......ENPD.YKELRKLE..YEQK...LS.YF.A.KN.Q..
RetrocopyQRPQLNEKVLKDKRKTL*ETIEQIVQLYFFKKRPENPDMYKELRKLE-KYEQKKTELSRYFNAIKNTQ<D
ParentalVEVESIPLPDMPHAPSNILIQDIPLPGAQPPSILKKT-SAYGPPTRAVSILPLLGHGVPRLPPGRKPPGP
VEVE.IPL...PH.PSNILI.DI.L.GAQ.PS.LKKT.SAY.PPTRAVSILPL.GHGVP.L.PGRK.PGP
RetrocopyVEVENIPL---PHMPSNILIKDISLSGAQLPSVLKKT<SAYEPPTRAVSILPLMGHGVPYLSPGRKLPGP
ParentalPPGPPPPQVLQMYGRKVGFALDLPPRRRDEDMLYSPELAQRGHDDDMSSTSEDDGYPEDMDQDKHDDSTE
P.GPPPPQVL.MY..KVGF.L..PP.R.DED.L.S..LAQ.GH.DDMSSTS.D..Y.EDM.QDKH...T.
RetrocopyPFGPPPPQVLLMYSHKVGFSLHRPP*RQDEDKLHSLDLAQQGHNDDMSSTSYDYSYIEDMGQDKHNEGTK
ParentalDSDTDRSDAESDGDEFGHRDDSERDNTEEKKSGLSVRFADMPGKSRKKKKNMKELTPLQAMMLRMAGQEI
DSDTDR.D....G.......D.E..NTEE.KS.L.VRFA.MPGKSRK....MKELTPLQAMML..AG.EI
RetrocopyDSDTDRLDTKT-GMSSCTVNDCEQENTEE-KSDLRVRFANMPGKSRK---TMKELTPLQAMML*SAGKEI
ParentalPEEGREVEEFSEEEDDD---DSEDSEAEKPSQKQHKEDSHADGSSAASSQQQAPPQAVPPSQIQAPPMPG
PEE..EVEEFSEEE.DD...DS.DSEAEK.SQKQ..ED.H.DGSSAASSQQQAPPQ..P.....APP...
RetrocopyPEEEQEVEEFSEEEEDDNDDDSDDSEAEKQSQKQQEEDAHSDGSSAASSQQQAPPQSIPLGPPPAPPLQS
ParentalP-PPLGPPPAPPLRPPGPPTGLPPGPPPGAPPF--LRPPGMPGIRGPLPRLLPPGPPPGRPPGPPP-GPP
P.PP.G..P.PP..P..PP...PPG.P....P...L..PG.P......P.L.PP...PG.P.G.PP.GP.
RetrocopyPGPPTGLLPGPP--PGSPPFLRPPGMPRIRRPLPQLLLPGPPPG*SLGPHLGPP---PGLPCGSPPRGPQ
ParentalPG-LPPGPPPRGPPPRLPPPAPPGIPPP
...LPP.P.P.G.PP..P........PP
RetrocopyQS<LPP-PAPPGIPPCHPTMMDTALMPP

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 .00 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_740 retrocopy.

TSS - click to see more details

Rattus norvegicus was not studied using FANTOM5 data.

Lab - click to see more details

retro_rnor_740 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_740 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 ENSRNOG000000055053 retrocopies
retro_rnor_1287, retro_rnor_2726, retro_rnor_741,
Rattus norvegicus ENSRNOG00000049593 1 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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