RetrogeneDB ID:

retro_rnor_307

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:5:65901494..65903054(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSRNOG00000011497
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:Aldh2
Ensembl ID:ENSRNOG00000001344
Aliases:None
Description:aldehyde dehydrogenase, mitochondrial precursor [Source:RefSeq peptide;Acc:NP_115792]


Retrocopy-Parental alignment summary:






>retro_rnor_307
ATGCTGAACGCCCGATTCTTGGTGCCCCGGCTCCTCTGCCTCCAGGGCAGGACCACCTCATATTCTACAGCGGCTGCTCT
CCCAAACCCAATCCCAAACCCAGAGATTCGCTACAACCAGCTGTTCATCAACAACGAGTGGCATGATGCGGTCAGCAAAA
AGACCTTCCCCACGGTGAACCCCACGACAGGCGAGGTCATTGGGCATGTGGCTGAAGGTGACCGGGCAGATGTGGATCTG
GCTGTGAGAGCAGCCCGAGAAGCCTTCCGCCTGGGGTCCCCGTGGCGCAGGATGGATGCCTCAGAGCGGGGCCGGCTGCT
GAACCGCCTAGCTGATCTCGTGGAACGGGATCGAGTGTACTTGGCCTCACTGGAGACCCTGGATAATGGGAAACCTTTTC
AGGAGTCTTATGTCTTGGACCTGGATGAAGTCATCAAGGTATACCGTTACTTTGCTGGCTGGGCTGACAAATGGCATGGT
AAGACCATCCCAATGGACGGCGAACATTTCTGCTTCACCCGCCATGAGCCAGTGGGTGTCTGTGGCCAGATAATCCCTTG
GAACTTCCCATTGGTCATGCAGGGTTGGAAGCTGGCCCCAGCACTCGCCACAGGCAACACCGTGGTCATGAAGGTGGCAG
AGCAAACCCCACTTTCTGCTCTGTACTTGGCCTCCCTCATCAAGGAAGCGGGGTTTCCCCCAGGAGTGGTGAATATCATC
ACCGGCTACGGCCCCACTGCAGGAGCAGCCATTGCCCAGCACATGGATGTGGATAAAGTCGCCTTCACCGGCTCTACCGA
GGTGGGCCACCTGATTCAGAAGGCCGCCGGTGATTCCAACCTCAAGAGAGTCACCCTGGAGCTGGGTGGGAAAAGCCCCA
GCATCGTGCTGGCAGACGCTGACATGGATCACGCCGTAGACCAGTGTCACGAAGCCCTCTTTTTCAACATGGGTCAGTGC
TGCTGTGCAGGATCCCGGACATTCGTGGAAGAGTCCATCTATCATGAGTTTCTCGAGAGAACTGTGGAGAAGGCCAAGAA
GAGGAAAGTGGGGAACCCCTTTGAGTTGGACACTCAACAGGGACCTCAGGTGGACAAGGAGCAATTTGAAAAGATCCTGG
GCTACATCCGGCTTGGACAGAAGGAAGGGGCAAAGCTTCTCTGTGGTGGGGAGCGTTTCGGGGAACGCGGCTTCTTCATC
AAGCCCACAGTCTTTGGGAATGTTCAGGATGACATGAGGATCGCCAGGGAGGAGATCTTTGGGCCTGTGCAGCCTCTGTT
CAAGTTCAAGAAGATCGAGGAAGTAATCCAGAGAGCCAACAATACCAGGTACGGCTTGGCTGCGGCTGTATTCACCCGAG
ACCTGGACAAGGCCTTATACTTTTCCCAGGCCCTGCAAGCCGGGACCGTGTGGGTGAACACCTACAATATCGTCACCTGC
CACACGCCATTCGGAGGCTTTAAGGAATCCGGCAATGGCAGAGAGCTGGGGGAAGATGGGCTTAAAGCCTACACGGAGGT
GAAGACTGTCACCATCAAGGTTTCTGAGAAGAATTCCTGA

ORF - retro_rnor_307 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 72.45 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMLRAALSTARRGPRLSRLLSAAATSAVPAPNQQPEVFCNQIFINNEWHDAVSKKTFPTVNPSTGEVICQV
ML.A.....R......R..S.....A.P.P...PE...NQ.FINNEWHDAVSKKTFPTVNP.TGEVI..V
RetrocopyMLNARFLVPRLLCLQGRTTSYSTAAALPNPIPNPEIRYNQLFINNEWHDAVSKKTFPTVNPTTGEVIGHV
ParentalAEGNKEDVDKAVKAARAAFQLGSPWRRMDASDRGRLLYRLADLIERDRTYLAALETLDNGKPYVISYLVD
AEG...DVD.AV.AAR.AF.LGSPWRRMDAS.RGRLL.RLADL.ERDR.YLA.LETLDNGKP...SY..D
RetrocopyAEGDRADVDLAVRAAREAFRLGSPWRRMDASERGRLLNRLADLVERDRVYLASLETLDNGKPFQESYVLD
ParentalLDMVLKCLRYYAGWADKYHGKTIPIDGDFFSYTRHEPVGVCGQIIPWNFPLLMQAWKLGPALATGNVVVM
LD.V.K..RY.AGWADK.HGKTIP.DG..F..TRHEPVGVCGQIIPWNFPL.MQ.WKL.PALATGN.VVM
RetrocopyLDEVIKVYRYFAGWADKWHGKTIPMDGEHFCFTRHEPVGVCGQIIPWNFPLVMQGWKLAPALATGNTVVM
ParentalKVAEQTPLTALYVANLIKEAGFPPGVVNIVPGFGPTAGAAIASHEDVDKVAFTGSTEVGHLIQVAAGSSN
KVAEQTPL.ALY.A.LIKEAGFPPGVVNI..G.GPTAGAAIA.H.DVDKVAFTGSTEVGHLIQ.AAG.SN
RetrocopyKVAEQTPLSALYLASLIKEAGFPPGVVNIITGYGPTAGAAIAQHMDVDKVAFTGSTEVGHLIQKAAGDSN
ParentalLKRVTLELGGKSPNIIMSDADMDWAVEQAHFALFFNQGQCCCAGSRTFVQEDVYDEFVERSVARAKSRVV
LKRVTLELGGKSP.I...DADMD.AV.Q.H.ALFFN.GQCCCAGSRTFV.E..Y.EF.ER.V..AK.R.V
RetrocopyLKRVTLELGGKSPSIVLADADMDHAVDQCHEALFFNMGQCCCAGSRTFVEESIYHEFLERTVEKAKKRKV
ParentalGNPFDSRTEQGPQVDETQFKKILGYIKSGQQEGAKLLCGGGAAADRGYFIQPTVFGDVKDGMTIAKEEIF
GNPF...T.QGPQVD..QF.KILGYI..GQ.EGAKLLCGG.....RG.FI.PTVFG.V.D.M.IA.EEIF
RetrocopyGNPFELDTQQGPQVDKEQFEKILGYIRLGQKEGAKLLCGGERFGERGFFIKPTVFGNVQDDMRIAREEIF
ParentalGPVMQILKFKTIEEVVGRANNSKYGLAAAVFTKDLDKANYLSQALQAGTVWINCYDVFGAQSPFGGYKMS
GPV....KFK.IEEV..RANN..YGLAAAVFT.DLDKA.Y.SQALQAGTVW.N.Y.......PFGG.K.S
RetrocopyGPVQPLFKFKKIEEVIQRANNTRYGLAAAVFTRDLDKALYFSQALQAGTVWVNTYNIVTCHTPFGGFKES
ParentalGSGRELGEYGLQAYTEVKTVTVKVPQKNS
G.GRELGE.GL.AYTEVKTVT.KV..KNS
RetrocopyGNGRELGEDGLKAYTEVKTVTIKVSEKNS

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
SRP017611_brain 8 .99 RPM 59 .17 RPM
SRP017611_kidney 22 .68 RPM 600 .76 RPM
SRP017611_liver 14 .25 RPM 1119 .30 RPM

ChIP-Seq - click to see more details

Rattus norvegicus was not studied using ChIP-Seq data.

EST - click to see more details

1 EST(s) were mapped to retro_rnor_307 retrocopy
EST ID Start End Identity Match Mis-match Score
DY560872 65901648 65902363 99.9 709 0 707

TSS - click to see more details

Rattus norvegicus was not studied using FANTOM5 data.

Lab - click to see more details

retro_rnor_307 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_307 has 8 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_19
Pan troglodytes retro_ptro_118
Gorilla gorilla retro_ggor_33
Pongo abelii retro_pabe_32
Macaca mulatta retro_mmul_247
Mus musculus retro_mmus_222
Bos taurus retro_btau_48
Sus scrofa retro_sscr_9
Parental genes homology:
Parental genes homology involve 21 parental genes, and 22 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000136641 retrocopy
retro_amel_51,
Bos taurus ENSBTAG000000087431 retrocopy
retro_btau_48,
Canis familiaris ENSCAFG000000086831 retrocopy
retro_cfam_1493,
Equus caballus ENSECAG000000176732 retrocopies
retro_ecab_1054, retro_ecab_1061,
Felis catus ENSFCAG000000220001 retrocopy
retro_fcat_1590,
Homo sapiens ENSG000001112751 retrocopy
retro_hsap_19,
Gorilla gorilla ENSGGOG000000071081 retrocopy
retro_ggor_33,
Latimeria chalumnae ENSLACG000000117981 retrocopy
retro_lcha_108,
Microcebus murinus ENSMICG000000034871 retrocopy
retro_mmur_19,
Myotis lucifugus ENSMLUG000000170841 retrocopy
retro_mluc_1918,
Macaca mulatta ENSMMUG000000083361 retrocopy
retro_mmul_247,
Mustela putorius furoENSMPUG000000022821 retrocopy
retro_mputfur_27,
Mus musculus ENSMUSG000000294551 retrocopy
retro_mmus_222,
Nomascus leucogenys ENSNLEG000000000161 retrocopy
retro_nleu_22,
Otolemur garnettii ENSOGAG000000330931 retrocopy
retro_ogar_203,
Pongo abelii ENSPPYG000000049661 retrocopy
retro_pabe_32,
Pteropus vampyrus ENSPVAG000000131891 retrocopy
retro_pvam_163,
Rattus norvegicus ENSRNOG00000001344 1 retrocopy
retro_rnor_307 ,
Sus scrofa ENSSSCG000000098891 retrocopy
retro_sscr_9,
Ictidomys tridecemlineatus ENSSTOG000000150091 retrocopy
retro_itri_33,
Xenopus tropicalis ENSXETG000000209301 retrocopy
retro_xtro_12,




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