RetrogeneDB ID:

retro_mluc_397

Retrocopy
location
Organism:Microbat (Myotis lucifugus)
Coordinates:GL429768:9167882..9168995(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMLUG00000008254
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_397
ATGGATGTAGACGCCAAGTACCGCCAGGCCTCCCTCTATGTGGGTGACCTCCCTCCAGATGTCACCGAGAACATGCTGTT
CCTGAAGTTCAGCACCGTGGGAACTGTGCTGTCCATCCGCATCTGCAGGGACCTGGTCACCCGCTGCTCCCTGGGCTATG
CCTATGTGAACTTCCTGCACGTGGCTGATGCCCAGAAAGCCCTGGACACCATGAACTTCGACGTGGTACAAGGCCAACCC
ATCAGGCTCATGTGGTCTCAACGCGACGCCTACTTAAGGAAATCTGGAATCGGGAACGTGTTCATCAAGAATCTGGACAA
ATCCATTGATAACAAAACGCTTTATGAGCATTTTTCAGTTTTTGGGAAGATCCTGTCCTCTAAGGTGATGTATGATGATC
AGGTCTCCAGGGGCTATGGATTTGTGCACTTTCAGAACCAGGCTGCCGCCGACAGGGCCATTGAGGAGATGAATGGGATG
CTGCTTAAGGACTTTAGGCTCTTCGTTGGCCCATTTAAAAACCGCAAAGATCGGGAAGCTGAGCTCCAAAATAAAGCCAA
TGAATTCACCAATATTTACATCAAGAACTTTGGAGATGAGATGGATGATGAGAAGCTGAAGGAATTTTTCAGCCATTATG
GCAAAATCGTGAGTGTTAAGGTGATGACAGATTCCAGTGGGAAATCCAAAGGCTTTGGCTTTGTGAGTTTTGATACCCAT
GAGGCTGCCAAAAGGGCTGTTGATATAGTGAATGGGAGGGAAATATTCGGACAGCAGGTATTTGTAGGCCGGGCACAAAA
GAAAGCAGAGCGACAAGCTGAGTTAAAGCAATTGTTTGAGCAGCGGAAACAGGAAAGATCTTGGCGGGTCAGGGGAACGA
AAATCTATGTTAAGAACCTCGATGAGACCGTTGATGAAGAAAAACTACGAAAAGAATTTTCTTCATTTGGATCAATTATC
AGAGTGAAGGTAATGCAGGAAGAAGGACGAAGCAGAGGGTTTGGCTTGATCTGCTTCTCCTCTCCAGAGGAGGCTGCTAG
AGCAATGGCTGAGATGAATGGCCGCATGTTGGGCTCCAAGCCAATTAACATCGCCCTGGCCCAAAGGGCCTAG

ORF - retro_mluc_397 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.49 %
Parental protein coverage: 59.35 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalSSYPMASLYVGDLHSDVTEAMLYEKFSPAGPVLSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFD
..Y..ASLYVGDL..DVTE.ML..KFS..G.VLSIR.CRD..TR.SLGYAYVNF...ADA..ALDTMNFD
RetrocopyAKYRQASLYVGDLPPDVTENMLFLKFSTVGTVLSIRICRDLVTRCSLGYAYVNFLHVADAQKALDTMNFD
ParentalVIKGKPIRIMWSQRDPSLRKSGVGNVFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYAFVHF
V..G.PIR.MWSQRD..LRKSG.GNVFIKNLDKSIDNK.LY..FS.FG.ILS.KV..D...S.GY.FVHF
RetrocopyVVQGQPIRLMWSQRDAYLRKSGIGNVFIKNLDKSIDNKTLYEHFSVFGKILSSKVMYDDQVSRGYGFVHF
ParentalETQEAADKAIEKMNGMLLNDRKVFVGRFKSRKEREAELGAKAKEFTNVYIKNFGEEVDDESLKELFSQFG
..Q.AAD.AIE.MNGMLL.D...FVG.FK.RK.REAEL..KA.EFTN.YIKNFG.E.DDE.LKE.FS..G
RetrocopyQNQAAADRAIEEMNGMLLKDFRLFVGPFKNRKDREAELQNKANEFTNIYIKNFGDEMDDEKLKEFFSHYG
ParentalKTLSVKVMRDPTGKSKGFGFVSYEKHEDANKAVEEMNGKEISGKVIFVGRAQKKVERQAELKRKFEQLKQ
K..SVKVM.D..GKSKGFGFVS...HE.A..AV...NG.EI.G...FVGRAQKK.ERQAELK..FEQ.KQ
RetrocopyKIVSVKVMTDSSGKSKGFGFVSFDTHEAAKRAVDIVNGREIFGQQVFVGRAQKKAERQAELKQLFEQRKQ
ParentalERISRYQGVNLYIKNLDDTIDDEKLRKEFSPFGSITSAKVMLEDGRSKGFGFVCFSSPEEATKAVTEMNG
ER..R..G...Y.KNLD.T.D.EKLRKEFS.FGSI...KVM.E.GRS.GFG..CFSSPEEA..A..EMNG
RetrocopyERSWRVRGTKIYVKNLDETVDEEKLRKEFSSFGSIIRVKVMQEEGRSRGFGLICFSSPEEAARAMAEMNG
ParentalRIVGSKPLYVALAQR
R..GSKP...ALAQR
RetrocopyRMLGSKPINIALAQR

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_397 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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