RetrogeneDB ID:

retro_dmel_11

Retrocopy
location
Organism:Fruit fly (Drosophila melanogaster)
Coordinates:3R:12466049..12467942(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:FBgn0015520
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:nonA
Ensembl ID:FBgn0004227
Aliases:None
Description:no on or off transient A [Source:FlyBase gene name;Acc:FBgn0004227]


Retrocopy-Parental alignment summary:






>retro_dmel_11
ATGGAGGGCGCTGTTAAGAAAAACAGTTTGAACTCTTCGCCATTGCCACAACGCCAGCAGAGGGGCAATTCGACCAATAA
GAACCTGGGCAAGCCAACGCCCCCGAAGCTAAATGCTGCCAGCGACGGTAATCCTGCCGAGAAAAAGGCAAGACTTGGAG
GAAACACCCAGAACGGTGGTGGAGTAGCTGGTGGCGGCGGCACTGGCGGTGGTGGTGGTGGTGGTGGTGCTACTGGCGGC
GTTGAATTTTCCAGAAATCGCAATCGAGGCGGCAACCAAAATGAAAACCGGCAGGGTTTCCAAGTCGCAAATAATTCACA
TCAAAAGCAGATTAACGAATCGCCGAAGCCGGCTGCGGGCAATGTGCCCGCAAAGAACAATGAACTCTCAGCTGGCGGAG
GTGGTCAAAACCAGCCGAACCATAGTAACAAGGGCCAGGGTAACCAAGGCGATCAAGGAGAACAGGGAAACCAAGGACCG
AATTTCAGAGGTCGTGGTGGTGGCCCAAATCAGCCGAATCAGAATGCCAACCAGGAGCAAAGCAATGGATATCCCGGCAA
CCAAGGAGACAATAAAGGAGGACAGGGCCAACGCGGTGCTGGAGGTGGAAAACACCAGCGTGGAAACCGCTCTAGGCGCT
CTGGGGGATCTGGAATCATGAACTCATCAATGGGCGGCGGTGGGCAGCGCGGCGAAGACTTTTTCATTGCCCAACGACTG
CTCGACATTAGTGGACCCACCCATGAGTTGCCGCCCATTGAGTTACCCACCGATAACAAATTCGTCGGACGCAACCGCTT
ATATGTTGGCAACCTCACCAGCGACACAACTGATGACGACCTACGGGAGATGTTCAAGCCATATGGCGAGATCGGCGATA
TATTCTCGAACCCGGAGAAGAACTTTACATTCCTGAGGCTAGACTACTACCAAAATGCTGAGAAGGCCAAACGCGCTTTA
GATGGCTCCTTGCGCAAGGGACGAGTGCTGCGTGTCCGCTTTGCGCCCAACGCCATTGTGCGTGTGACTAATCTCAACCA
GTTCGTGTCCAACGAGCTGCTGCACCAGTCCTTTGAGATCTTTGGACCCATCGAGCGCGCCGTTATCTGCGTAGACGATC
GCGGTAAGCATACCGGCGAAGGCATTGTTGAGTTCGCCAAGAAGTCCTCGGCCAGCGCCTGTCTGCGCCTGTGCAACGAA
AAATGCTTCTTCTTGACTGCTTCATTGCGTCCGTGTCTGGTGGAACCGATGGAGGTGAACAACGACAATGACGGCTTGCC
GGATAAGACGTTAAACAAAAAGTCGCTGGAATTCAGACATGAGCGTAGTGTCGGACCGCGTTTCGCTTGTTTAAATTCGT
TTGAGCACGAGTATGGATCACGCTGGAAGCAATTGCACGATCTCTTCAAGAGCAAACAGGACTCACTCAAGCGTGAGTTG
AAAATGGAGGAGGACAAGCTGGAGGCCCAGATGGAGTACGCTCGCTACGAACAGGAGACCGAACTGCTGCGCCAGGAGCT
GAAGAAGCGCGAGCTGGACAACGAGCGCATGAAACTGGAGTGGGAGATGCGTGAGAAACAAGCCGAGGAGATTCGAAAGC
GGGAAGAGGAATACATGCATCGTTATCAAAACCAATTACTTCGCCATGAGGAGGATATGCGAGCCCGTCAGCAGGAGAAC
GATTTGCTAATGCAGGCCAAGAAACTCAACATGATCCTCGATCAGCAGGAGGGATTCGGAGGCAGCAACTCTGGATTCGA
ACACTTTGATTCCCCTTTTGAAGTATTTGGGAACAACAGCAACAATTCAACAATGGCTGGACCTGGAGGTCCAGATAATA
GCGACGGAAACCAACACGGACACATTGATTCATGGGGACACCGACGCTTCTAG

ORF - retro_dmel_11 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.14 %
Parental protein coverage: 74.79 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalQNQANQNANKGQNQRQGQNQNQNQVHGQGNQGGPGNQGGAGNQGGQGNQGGAGNQGNGQGFRGRNAGNNQ
Q.Q.N.............N.......G..NQ....N.G..GNQG.QG.QG..G....G.G........N.
RetrocopyQKQINESPKPAAGNVPAKNNELSAGGGGQNQPNHSNKG-QGNQGDQGEQGNQGPNFRGRGGGPNQPNQNA
ParentalGGGFSGGPQNQQRDNRNRSGPR-PGGGAGGAMNSTNMGGGGG---GGGGGGPRGGEDFFITQRLRSISGP
....S.G....Q.DN....G.R..GGG.....N.....GG.G......GGG...GEDFFI.QRL..ISGP
RetrocopyNQEQSNGYPGNQGDNKGGQGQRGAGGGKHQRGNRSRRSGGSGIMNSSMGGGGQRGEDFFIAQRLLDISGP
ParentalTFELEPVEVPTETKFSGRNRLYVGNLTNDITDDELREMFKPYGEISEIFSNLDKNFTFLKVDYHPNAEKA
T.EL.P.E.PT..KF.GRNRLYVGNLT.D.TDD.LREMFKPYGEI..IFSN..KNFTFL..DY..NAEKA
RetrocopyTHELPPIELPTDNKFVGRNRLYVGNLTSDTTDDDLREMFKPYGEIGDIFSNPEKNFTFLRLDYYQNAEKA
ParentalKRALDGSMRKGRQLRVRFAPNATILRVSNLTPFVSNELLYKSFEIFGPIERASITVDDRGKHMGEGIVEF
KRALDGS.RKGR.LRVRFAPNA.I.RV.NL..FVSNELL..SFEIFGPIERA.I.VDDRGKH.GEGIVEF
RetrocopyKRALDGSLRKGRVLRVRFAPNA-IVRVTNLNQFVSNELLHQSFEIFGPIERAVICVDDRGKHTGEGIVEF
ParentalAKKSSASACLRMCNEKCFFLTASLRPCLVDPMEVNDDTDGLPEKAFNKKMPDFNQERSIGPRFADPNSFE
AKKSSASACLR.CNEKCFFLTASLRPCLV.PMEVN.D.DGLP.K..NKK...F..ERS.GPRFA..NSFE
RetrocopyAKKSSASACLRLCNEKCFFLTASLRPCLVEPMEVNNDNDGLPDKTLNKKSLEFRHERSVGPRFACLNSFE
ParentalHEYGSRWKQLHNLFKTKQDALKRELKMEEDKLEAQMEYARYEQETELLRQELRKREVDNERKKLEWEMRE
HEYGSRWKQLH.LFK.KQD.LKRELKMEEDKLEAQMEYARYEQETELLRQEL.KRE.DNER.KLEWEMRE
RetrocopyHEYGSRWKQLHDLFKSKQDSLKRELKMEEDKLEAQMEYARYEQETELLRQELKKRELDNERMKLEWEMRE
ParentalKQAEEMRKREEETMRRHQTEMQSHMNRQEEDMLRRQQET-LFMKAQQLNSLLDQQEGFGGGGGGNNSTFD
KQAEE.RKREEE.M.R.Q.....H....EEDM..RQQE..L.M.A..LN..LDQQEGFGG.....NS.F.
RetrocopyKQAEEIRKREEEYMHRYQNQLLRH----EEDMRARQQENDLLMQAKKLNMILDQQEGFGG----SNSGFE
ParentalNFAGNSNSPFEVFRGNNNNNSTMIGNNAAPNTQVCPH
.F.....SPFEVF.GNN.NNSTM.G.....N.....H
RetrocopyHF----DSPFEVF-GNNSNNSTMAGPGGPDNSDGNQH

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Drosophila melanogaster was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Drosophila melanogaster was not studied using ChIP-Seq data.

EST - click to see more details

9 EST(s) were mapped to retro_dmel_11 retrocopy
EST ID Start End Identity Match Mis-match Score
AA246645 12466736 12467189 99.8 452 1 451
AI517088 12465989 12466650 100 661 0 661
AI532386 12466271 12466796 99.7 523 2 521
BF491115 12466551 12466966 100 415 0 415
BI162533 12465971 12466478 99.9 506 1 505
BI570821 12465971 12466507 100 536 0 536
BI570825 12465971 12466400 99.8 428 1 427
CO177513 12466555 12466958 100 403 0 403
EC195647 12466555 12466957 100 402 0 402

TSS - click to see more details

Drosophila melanogaster was not studied using FANTOM5 data.

Lab - click to see more details

retro_dmel_11 was not experimentally validated.

Retrocopy orthology:
Drosophila melanogaster does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.
Parental genes homology:
Parental genes homology involve 35 parental genes, and 50 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000160572 retrocopies
retro_amel_1438, retro_amel_795,
Bos taurus ENSBTAG000000121522 retrocopies
retro_btau_1027, retro_btau_313,
Canis familiaris ENSCAFG000000035951 retrocopy
retro_cfam_198,
Canis familiaris ENSCAFG000000170711 retrocopy
retro_cfam_98,
Callithrix jacchus ENSCJAG000000014314 retrocopies
retro_cjac_1073, retro_cjac_2542, retro_cjac_2697, retro_cjac_486,
Callithrix jacchus ENSCJAG000000367441 retrocopy
retro_cjac_3990,
Dasypus novemcinctus ENSDNOG000000110782 retrocopies
retro_dnov_1278, retro_dnov_488,
Equus caballus ENSECAG000000085022 retrocopies
retro_ecab_357, retro_ecab_427,
Felis catus ENSFCAG000000148072 retrocopies
retro_fcat_1219, retro_fcat_147,
Felis catus ENSFCAG000000312871 retrocopy
retro_fcat_1989,
Homo sapiens ENSG000001471401 retrocopy
retro_hsap_1699,
Gasterosteus aculeatus ENSGACG000000020341 retrocopy
retro_gacu_13,
Gorilla gorilla ENSGGOG000000061941 retrocopy
retro_ggor_1273,
Gadus morhua ENSGMOG000000119501 retrocopy
retro_gmor_20,
Macropus eugenii ENSMEUG000000140821 retrocopy
retro_meug_164,
Microcebus murinus ENSMICG000000002321 retrocopy
retro_mmur_569,
Myotis lucifugus ENSMLUG000000024891 retrocopy
retro_mluc_622,
Mustela putorius furoENSMPUG000000049371 retrocopy
retro_mputfur_937,
Mus musculus ENSMUSG000000313112 retrocopies
retro_mmus_3652, retro_mmus_632,
Nomascus leucogenys ENSNLEG000000012781 retrocopy
retro_nleu_1344,
Oryctolagus cuniculus ENSOCUG000000018771 retrocopy
retro_ocun_1834,
Oryctolagus cuniculus ENSOCUG000000218482 retrocopies
retro_ocun_1317, retro_ocun_1804,
Otolemur garnettii ENSOGAG000000048343 retrocopies
retro_ogar_1525, retro_ogar_546, retro_ogar_593,
Oreochromis niloticus ENSONIG000000177371 retrocopy
retro_onil_21,
Pongo abelii ENSPPYG000000204511 retrocopy
retro_pabe_1398,
Pan troglodytes ENSPTRG000000220101 retrocopy
retro_ptro_1150,
Pteropus vampyrus ENSPVAG000000165031 retrocopy
retro_pvam_444,
Rattus norvegicus ENSRNOG000000036892 retrocopies
retro_rnor_1178, retro_rnor_1503,
Sorex araneus ENSSARG000000079592 retrocopies
retro_sara_661, retro_sara_663,
Sarcophilus harrisii ENSSHAG000000161071 retrocopy
retro_shar_36,
Tupaia belangeri ENSTBEG000000023612 retrocopies
retro_tbel_2388, retro_tbel_3616,
Tetraodon nigroviridis ENSTNIG000000113311 retrocopy
retro_tnig_32,
Takifugu rubripes ENSTRUG000000037831 retrocopy
retro_trub_8,
Xiphophorus maculatus ENSXMAG000000079291 retrocopy
retro_xmac_3,
Drosophila melanogaster FBgn0004227 1 retrocopy
retro_dmel_11 ,




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