RetrogeneDB ID:

retro_mluc_323

Retrocopy
location
Organism:Microbat (Myotis lucifugus)
Coordinates:GL429779:15089874..15091050(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMLUG00000014449
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:PDHA1
Ensembl ID:ENSMLUG00000012932
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mluc_323
ATGAGGAAGATGCTCGCTGCGGCTGTGTCTCGCCTGTTGCCGCGGGTCGCCCCGAAGCCCGCCAGCAGAATGCTGGGGGC
AGCCGGTACCTTCGCCGATAAGGCCACATTTGACATTAAGCCGTGTGAGCTCTACCGGCTGGAGGAAGGCCCCCCTGCCA
CCGCCGTGCTCACCCGGGAGGAGGGGCTCAAATACTACAAGACGATGCAGATGGTCCGCCGAATGGAACTGAAGGCAGAT
CAGCTGTATAAGCAGAAATTCATCCGTGGTTTCTGTCACTTGTGTGACGGGCAGGAGGCTTGCTGCGTGGGCCTGGAGGC
CGGGATCAACCCCACCGACCACGTTATCACATCCTACCGGGCTCACGGCTTATGCTACACTCGCGGGGTCTCGATCCGAT
CCATTCTTACCGAACTGACGGGGCGCAGAGGGGGCTGTGCTAAAGGCAAAGGGGGCTCCATGCACATGTACGGCAAGTAC
TTCTACGGGGGAAATGGCATCGTGGGCTCTCAGACACCCATAGGGGCCGGGATCGCCCTGGCCTGCAAATACAAGGGCAG
CAGTGAGATCTCCTTGACCCTGTATGGGGATGGAGCTGCCAACCAGGGCCAGGTCGCCGAGGCCTTCAACATGGCCAGCT
TGTGGAAGCTGCCGTGCGTGTTCATCTGCGAGAATAACCTCTACGGTATGGGAACGGCCACCGACCGAGCAGCCGCCAGC
ACCGAATACTACAAGAGGGGCCATTTCATCCCCGGCCTGAAGGTGGACGGGATGGACGTGCTGTGTGTTCGGGAGGCAAC
CAAGTTTGCCGCTGACCATTGCAGGTCGGGGAAGGGGCCCATCGTGATGGAGCTGCACACCTACCGCTACCACGGACACA
GCATGAGCGACCCGGGCGTCAGCTACCGCACCCGCGAGGAAATCCAGGCGGTGCGGAGCAAGAGCGACCCGATCATGCTG
CTCAAAGACAGGATGCTGGCCGGCAAGCTGGCCAGTGCGGACGAGCTGAAGGACATCGATGCGGACGTGAAGAAAGAGAT
CGAGGAAGCGGCCCAGTTTGCTATCACGGATCCGGAACCCGCTCTGGAAGAAATAGCCCATCACATCTACAAAGACAACC
CACCGTTTGAAGTTCGGGGCGCCAATCCATGGATCAAGTTTAAGTCCATCAGTTGA

ORF - retro_mluc_323 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.52 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMRKMLAA-VSRVLSGAAQKPASRVLVASRNFANDATFEIKKCDLHKLEEGPPVTTVLTREDGLRYYRMMQ
MRKMLAA.VSR.L...A.KPASR.L.A...FA..ATF.IK.C.L..LEEGPP.T.VLTRE.GL.YY..MQ
RetrocopyMRKMLAAAVSRLLPRVAPKPASRMLGAAGTFADKATFDIKPCELYRLEEGPPATAVLTREEGLKYYKTMQ
ParentalTVRRMELKADQLYKQKIIRGFCHLCDGQEACCVGMEAGINPTDHLITAYRAHGFTFTRGLSVREILAELT
.VRRMELKADQLYKQK.IRGFCHLCDGQEACCVG.EAGINPTDH.IT.YRAHG...TRG.S.R.IL.ELT
RetrocopyMVRRMELKADQLYKQKFIRGFCHLCDGQEACCVGLEAGINPTDHVITSYRAHGLCYTRGVSIRSILTELT
ParentalGRRGGCAKGKGGSMHMYAKNFYGGNGIVGAQVPLGAGIALACKYNGKDEVCLTLYGDGAANQGQIFEAYN
GRRGGCAKGKGGSMHMY.K.FYGGNGIVG.Q.P.GAGIALACKY.G..E..LTLYGDGAANQGQ..EA.N
RetrocopyGRRGGCAKGKGGSMHMYGKYFYGGNGIVGSQTPIGAGIALACKYKGSSEISLTLYGDGAANQGQVAEAFN
ParentalMAALWKLPCIFICENNRYGMGTSVERAAASTDYYKRGDFIPGLRVDGMDVLCVREATKFAAAHCRAGKGP
MA.LWKLPC.FICENN.YGMGT...RAAAST.YYKRG.FIPGL.VDGMDVLCVREATKFAA.HCR.GKGP
RetrocopyMASLWKLPCVFICENNLYGMGTATDRAAASTEYYKRGHFIPGLKVDGMDVLCVREATKFAADHCRSGKGP
ParentalILMELQTYRYHGHSMSDPGVSYRTREEIQEVRSKSDPIMLLKDRMVNSNLASVEELKEIDVEVRKEIEDA
I.MEL.TYRYHGHSMSDPGVSYRTREEIQ.VRSKSDPIMLLKDRM....LAS..ELK.ID..V.KEIE.A
RetrocopyIVMELHTYRYHGHSMSDPGVSYRTREEIQAVRSKSDPIMLLKDRMLAGKLASADELKDIDADVKKEIEEA
ParentalAQFATADPEPPLEELGYHIYSNEPPFEVRGANQWIKFKSIS
AQFA..DPEP.LEE...HIY...PPFEVRGAN.WIKFKSIS
RetrocopyAQFAITDPEPALEEIAHHIYKDNPPFEVRGANPWIKFKSIS

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_323 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 22 parental genes, and 27 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000167301 retrocopy
retro_amel_400,
Bos taurus ENSBTAG000000198522 retrocopies
retro_btau_100, retro_btau_1807,
Callithrix jacchus ENSCJAG000000054962 retrocopies
retro_cjac_2414, retro_cjac_27,
Dipodomys ordii ENSDORG000000118481 retrocopy
retro_dord_35,
Equus caballus ENSECAG000000019641 retrocopy
retro_ecab_21,
Erinaceus europaeus ENSEEUG000000054851 retrocopy
retro_eeur_580,
Homo sapiens ENSG000001318281 retrocopy
retro_hsap_41,
Gorilla gorilla ENSGGOG000000135741 retrocopy
retro_ggor_59,
Myotis lucifugus ENSMLUG00000012932 2 retrocopies
retro_mluc_2363, retro_mluc_323 ,
Macaca mulatta ENSMMUG000000173361 retrocopy
retro_mmul_123,
Mustela putorius furoENSMPUG000000032691 retrocopy
retro_mputfur_812,
Mus musculus ENSMUSG000000312992 retrocopies
retro_mmus_63, retro_mmus_631,
Nomascus leucogenys ENSNLEG000000098051 retrocopy
retro_nleu_74,
Oryctolagus cuniculus ENSOCUG000000147481 retrocopy
retro_ocun_264,
Pongo abelii ENSPPYG000000201711 retrocopy
retro_pabe_129,
Pan troglodytes ENSPTRG000000217171 retrocopy
retro_ptro_79,
Pteropus vampyrus ENSPVAG000000054201 retrocopy
retro_pvam_1306,
Sarcophilus harrisii ENSSHAG000000153751 retrocopy
retro_shar_84,
Sus scrofa ENSSSCG000000236432 retrocopies
retro_sscr_1015, retro_sscr_281,
Ictidomys tridecemlineatus ENSSTOG000000154331 retrocopy
retro_itri_1529,
Tupaia belangeri ENSTBEG000000143131 retrocopy
retro_tbel_3327,
Tursiops truncatus ENSTTRG000000006601 retrocopy
retro_ttru_1427,


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