RetrogeneDB ID:

retro_mluc_228

Retrocopy
location
Organism:Microbat (Myotis lucifugus)
Coordinates:GL429780:10451336..10452485(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMLUG00000008244
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:PABPC4
Ensembl ID:ENSMLUG00000012068
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mluc_228
ATGGGGAGTGGGGAGCCTAATCCTGCTGGCAAGAAAAAGAAGTACCTCAAGGCTGCCCTGTATGTGGGTGACTTGGACCC
AGATGTCACCGAGGACATGCTTTATAAAAAGTTCAGGCCTGCTGGCCCTCTGCGCTTCACCAGAATCTGCCGTGACCCAG
AGACCCGCAGCCCTCTGGGCTATGGCTATGTTAACTTCCGCTTTCCTGCAGATGCTGAGTGGGCCCTGAACACCATGAAT
TTTGATCTGATTAATGGAAAACCATTCCGCCTCATGTGGTCTCAGCCAGACGACCGCTTAAGAAAGTCTGGAGTTGGAAA
TATATTCATCAAAAACCTGGACAAATCCATAGACAACAGGGCTCTTTTTTATTTGTTTTCTGCTTTTGGGAACATTCTCT
CTTGCAAAGTTGTATGCGATGACAACGGCTCTAAGGGTTATGCCTATGTGCACTTTGACAGCCTGGCAGCTGCCAATAGA
GCCATCTGGCACATGAATGGTGTGCGGCTCAACAACCGCCAGGTGTATGTTGGCCGATTCAAATTTCCAGAAGAGCGGGC
AGCTGAAGTTAGGACCAGGGATAGAGCAACTTTCACCAATGTTTTCGTTAAAAACTTTGGCGATGAAGTAGATGATGAAA
AACTGAAGGAAATTTTCAGTGAATATGGGCCAACCGAGAGTGTTAAGGTAATAAGAGATGCCAGTGGGAAATCTAAAGGC
TTTGGATTTGTAAGATATGAGACACACGAGGCTGCTCAGAAGGCTGTGCTAGACCTGCACGGAAAGTCCATCGATGGGAA
AGCCCTATATGTAGGGCGAGCACAGAAGAAAATTGAACGTCTGGCTGAATTAAGGCGAAGATTTGAAAGGCTGAAAGTCA
AAGAAAAAAGTCGGCCTCCGGGGGTGCCTGTCTATATTAAGAACTTGGATGAGACCATCGATGATGAAAAATTAAGGGAG
GAATTTTCTTCCTTTGGATCAATTAGCCGAGCCAAAGTGATGGTGGAAGTGGGGCAAGGCAAAGGGTTTGGTGTAGTCTG
TTTCTCCTCTTTTGAAGAGGCTACCAAAGCAGTGGGTGAGATGAATGGTCGCATGGTGGGCTCCAAACCGCTGCATGTGA
CCCTGGGCCAAGCCAGGCGCAGGTGGTGA

ORF - retro_mluc_228 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 67.95 %
Parental protein coverage: 59.19 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalYPMASLYVGDLHSDVTEAMLYEKFSPAGPVLSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVI
Y..A.LYVGDL..DVTE.MLY.KF.PAGP....R.CRD..TR..LGY.YVNF..PADAE.AL.TMNFD.I
RetrocopyYLKAALYVGDLDPDVTEDMLYKKFRPAGPLRFTRICRDPETRSPLGYGYVNFRFPADAEWALNTMNFDLI
ParentalKGKPIRIMWSQRDPSLRKSGVGNVFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYAFVHFET
.GKP.R.MWSQ.D..LRKSGVGN.FIKNLDKSIDN.AL...FSAFGNILSCKVVCD.NGSKGYA.VHF..
RetrocopyNGKPFRLMWSQPDDRLRKSGVGNIFIKNLDKSIDNRALFYLFSAFGNILSCKVVCDDNGSKGYAYVHFDS
ParentalQEAADKAIEKMNGMLLNDRKVFVGRFKSRKEREAELGAKAKE-FTNVYIKNFGEEVDDESLKELFSQFGK
..AA..AI..MNG..LN.R.V.VGRFK...ER.AE........FTNV..KNFG.EVDDE.LKE.FS..G.
RetrocopyLAAANRAIWHMNGVRLNNRQVYVGRFKFPEERAAEVRTRDRATFTNVFVKNFGDEVDDEKLKEIFSEYGP
ParentalTLSVKVMRDPTGKSKGFGFVSYEKHEDANKAVEEMNGKEISGKVIFVGRAQKKVERQAELKRKFEQLKQE
T.SVKV.RD..GKSKGFGFV.YE.HE.A.KAV....GK.I.GK...VGRAQKK.ER.AEL.R.FE.LK..
RetrocopyTESVKVIRDASGKSKGFGFVRYETHEAAQKAVLDLHGKSIDGKALYVGRAQKKIERLAELRRRFERLKVK
ParentalRISRYQGVNLYIKNLDDTIDDEKLRKEFSPFGSITSAKVMLEDGRSKGFGFVCFSSPEEATKAVTEMNGR
..SR..GV..YIKNLD.TIDDEKLR.EFS.FGSI..AKVM.E.G..KGFG.VCFSS.EEATKAV.EMNGR
RetrocopyEKSRPPGVPVYIKNLDETIDDEKLREEFSSFGSISRAKVMVEVGQGKGFGVVCFSSFEEATKAVGEMNGR
ParentalIVGSKPLYVALAQRK
.VGSKPL.V.L.Q..
RetrocopyMVGSKPLHVTLGQAR

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






RNA-Seq - click to see more details

Myotis lucifugus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Myotis lucifugus was not studied using ChIP-Seq data.

EST - click to see more details

Myotis lucifugus was not studied using EST data.

TSS - click to see more details

Myotis lucifugus was not studied using FANTOM5 data.

Lab - click to see more details

retro_mluc_228 was not experimentally validated.

Retrocopy orthology:
Myotis lucifugus 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 19 parental genes, and 42 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000115352 retrocopies
retro_amel_107, retro_amel_676,
Bos taurus ENSBTAG000000171253 retrocopies
retro_btau_1492, retro_btau_28, retro_btau_656,
Canis familiaris ENSCAFG000000030812 retrocopies
retro_cfam_45, retro_cfam_837,
Choloepus hoffmanni ENSCHOG000000053273 retrocopies
retro_chof_1150, retro_chof_1182, retro_chof_1274,
Equus caballus ENSECAG000000093962 retrocopies
retro_ecab_2, retro_ecab_502,
Felis catus ENSFCAG000000152542 retrocopies
retro_fcat_116, retro_fcat_545,
Loxodonta africana ENSLAFG000000001513 retrocopies
retro_lafr_1144, retro_lafr_390, retro_lafr_597,
Microcebus murinus ENSMICG000000166331 retrocopy
retro_mmur_675,
Myotis lucifugus ENSMLUG000000005301 retrocopy
retro_mluc_1093,
Myotis lucifugus ENSMLUG000000063241 retrocopy
retro_mluc_509,
Myotis lucifugus ENSMLUG00000012068 2 retrocopies
retro_mluc_228 , retro_mluc_397,
Myotis lucifugus ENSMLUG000000122451 retrocopy
retro_mluc_579,
Monodelphis domestica ENSMODG000000176572 retrocopies
retro_mdom_1090, retro_mdom_1805,
Mustela putorius furoENSMPUG000000144142 retrocopies
retro_mputfur_152, retro_mputfur_546,
Mus musculus ENSMUSG000000112577 retrocopies
retro_mmus_2006, retro_mmus_2326, retro_mmus_2327, retro_mmus_798, retro_mmus_801, retro_mmus_803, retro_mmus_805,
Rattus norvegicus ENSRNOG000000156422 retrocopies
retro_rnor_175, retro_rnor_92,
Sarcophilus harrisii ENSSHAG000000181391 retrocopy
retro_shar_823,
Sus scrofa ENSSSCG000000036603 retrocopies
retro_sscr_1210, retro_sscr_974, retro_sscr_975,
Tursiops truncatus ENSTTRG000000143402 retrocopies
retro_ttru_1117, retro_ttru_246,


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