RetrogeneDB ID:

retro_mmus_2740

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:6:66527554..66528926(+)
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:ENSMUSG00000030216
Aliases:Wbp11, 2510026P17Rik, D6Wsu113e, Npwbp, SIPP1
Description:WW domain binding protein 11 [Source:MGI Symbol;Acc:MGI:1891823]


Retrocopy-Parental alignment summary:






>retro_mmus_2740
CTGTTTCCTCTCCTGGGGCACGGTGTTCCACGTTTGCCCCCTAGCAGAAAAACCACTCGGCCCTCCACCCGGCCCACTTC
CTCCTCAAGTTCTTCAGATGCATGGCTGTAAAGTGGGCTTTGCTCTAGATCTTCCCCCTCGGACGAGAGATGAAGACATG
TTGTATAGTCCAGAACTTGCTCAGCGAGATGCTGCTGCTGCTGTGTCCAGCACCAGTGAAGATGACGGCTATCCTGACAT
GGATCAGGATAAGCCCGAGGACCGCAACACTGACAGATCAGATACGGAAAATGACAGGGATGATTTTGGGCACCCCGATG
ACAATGAGCGCAACAATGCTGAGGAGAAGTCAGGTCTGAACATTCGAATTGCTGCTATGCCTGGGAAATCAAAGAAGACG
TAGAGCATGAAGGAACTGACCCCTCTTCAAGTCATGATGCTTCAAATGGCAGGTCAGGAAATCCCTGATGAAGGACGGGA
AGTGGAGGAATTTTCAGAGGCGAATGAAGACTATGACAATGACAAGTTTGATGATTCTGAAGCTGAAAAGCAATCCCAAA
AGCAGCATAAAGAAGATTCTCACTCTGATGGCACATCTGCTGCCTCTTCACAGCAGCAGGCTCCTCCTCCACAGTCCGTT
CCTCCTTCTCAGATACAAGCACCTCTCATGCCAGGACCACCATGTCTTGGACCACCACCTGCTCCACCCTTACGGCCTCC
TGGACCACCTACAGGCCTTCCTCCTGGGCCACCTCCAGCAGCTCCTCCATTCCTGAGACCACCTGGAATGCCAGGAATCC
AAGGGCCTTTACCACGGCTTTTACCTCCAGGACCACCACCAGGCCGACCTCCTCGCCCTCCCTCAGGCCTATATCCAGAT
CTGCCCCCTAGGCCCGCTCCTTGAGGAACACCTCCAAGTCTACCTCCTCCTGCACCTCCAGGCATCGCTCCTCATTATCC
TGACGTAATAAGCCCACCCTTGCTGCCTGCTCTTGGACCTGCCGCATCTGACCTTTTCCCACCAGCTCCATTGTTCAACC
CAGGGGTGTTGAGTGCCCCACCCAGCCTCATTCAGCGACCGAAGGCAGATGATGCAAGTACAGCAGCCATCCAGAAGAAA
GCCACAGTGACTATCAGTGGCAAGCCCCAGATCACCAATCCCAAGGCAGAGGTCACACGGTTTGTGCCCACTGCACTGAG
GATACACCGCAAGAATAAGCAGGCTACTGCTGTTCTCCAAAGAAGGTCCGAGGATGACTCTGCTGTGCCTGTCGCCAAAG
CGGCCCCCAGATCTGGTCCTTCAGTTCCCGTCTCAGTACAAACTAAGGACGATGTTTATGAAGTCTTTATGAAAGAGATG
GAATGGCTGCTG

ORF - retro_mmus_2740 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.05 %
Parental protein coverage: 71.76 %
Number of stop codons detected: 2
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalILPLLGHGVPRLPPGRK-PPGPPPGPPPPQVLQMYGRKVGFALDLPPRRRDEDMLYSPELAQRGHDDDMS
..PLLGHGVPRLPP.RK.P.GPPPGP.PPQVLQM.G.KVGFALDLPPR.RDEDMLYSPELAQR......S
RetrocopyLFPLLGHGVPRLPPSRK>PLGPPPGPLPPQVLQMHGCKVGFALDLPPRTRDEDMLYSPELAQRDAAAAVS
ParentalSTSEDDGYPEDMDQDKHDDSTEDSDTDRSDAESDGDEFGHREDSERDNTEEKKSGLSVRFADMPGKSRKK
STSEDDGYP.DMDQDK.....ED..TDRSD.E.D.D.FGH..D.ER.N.EEK.SGL..R.A.MPGKS.KK
RetrocopySTSEDDGYP-DMDQDK----PEDRNTDRSDTENDRDDFGHPDDNERNNAEEK-SGLNIRIAAMPGKS-KK
ParentalKKNMKELTPLQAMMLRMAGQEIPEEGREVEEFS---EEEDADDSDDSEAEKQSQKQHKDDGHSDSTAAAS
...MKELTPLQ.MML.MAGQEIP.EGREVEEFS...E..D.D..DDSEAEKQSQKQHK.D.HSD.T.AAS
RetrocopyT*SMKELTPLQVMMLQMAGQEIPDEGREVEEFSEANEDYDNDKFDDSEAEKQSQKQHKEDSHSDGTSAAS
ParentalSQQQAPP-QSAPASQIQAPPMPGPPPLGPPPAPPLRPPGPPTGLPPGPPPGAPPFLRPPGMPGIRGPLPR
SQQQAPP.QS.P.SQIQAP.MPGPP.LGPPPAPPLR..................FLRPPGMPGI.GPLPR
RetrocopySQQQAPPPQSVPPSQIQAPLMPGPPCLGPPPAPPLRXXXXXXXXXXXXXXXXXXFLRPPGMPGIQGPLPR
ParentalLLPPGPPPGRPPGPPPGPPPGLPPGPPPRGPPPRLPPPAPPGIPPPRPGMMRPPLVPPLGPAPPGLFPPA
LLPPGPPPGRPP.PP.G..P.LPP.P.P.G.PP.LPPPAPPGI.P..P....PPL.P.LGPA...LFPPA
RetrocopyLLPPGPPPGRPPRPPSGLYPDLPPRPAP*GTPPSLPPPAPPGIAPHYPDVISPPLLPALGPAASDLFPPA
ParentalPLPNPGVLSAPPSLIQRPKADDASAATIEKKATATISAKPQITNPKAEVTRFVPTALRVRRENKGATAVP
PL.NPGVLSAPPSLIQRPKADDAS.A.I.KKAT.TIS.KPQITNPKAEVTRFVPTALR..R.NK.ATAV.
RetrocopyPLFNPGVLSAPPSLIQRPKADDASTAAIQKKATVTISGKPQITNPKAEVTRFVPTALRIHRKNKQATAVL
ParentalQRRSEDDSAVPVAKAAPRSGPSVAVSVQTKDDVYEAFMKEMEGLL
QRRSEDDSAVPVAKAAPRSGPSV.VSVQTKDDVYE.FMKEME.LL
RetrocopyQRRSEDDSAVPVAKAAPRSGPSVPVSVQTKDDVYEVFMKEMEWLL

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 0 .00 RPM 72 .14 RPM
SRP007412_cerebellum 0 .00 RPM 75 .25 RPM
SRP007412_heart 0 .00 RPM 53 .95 RPM
SRP007412_kidney 0 .00 RPM 54 .73 RPM
SRP007412_liver 0 .00 RPM 36 .21 RPM
SRP007412_testis 0 .05 RPM 551 .66 RPM

ChIP-Seq - click to see more details

RNA Polymerase II activity near the 5' end of retro_mmus_2740 was not detected

EST - click to see more details

No EST(s) were mapped for retro_mmus_2740 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_mmus_2740 retrocopy 5' end.

Lab - click to see more details

retro_mmus_2740 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_2740 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 ENSMUSG00000030216 1 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 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