RetrogeneDB ID:

retro_btau_48

Retrocopy
location
Organism:Cow (Bos taurus)
Coordinates:8:62891040..62892603(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSBTAG00000020385
Aliases:ALDH1B1, ALDH5, ALDHX
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:ALDH2
Ensembl ID:ENSBTAG00000008743
Aliases:None
Description:Aldehyde dehydrogenase, mitochondrial [Source:UniProtKB/Swiss-Prot;Acc:P20000]


Retrocopy-Parental alignment summary:






>retro_btau_48
AGTACTCAGCATGCTGCGCTTCCTTTGCCCCGGCTGTTTGCCCTGCACCACTCCGCCACCCAGTACTTCTCAGCAGCAGC
CCTTCCCAGCCCCATCCCTAACCCAGACATCCCCGACAACCAGCTGTTCATCAGCAACAAGTGGCATGATGCCGTCAGCA
AGAAGACTTTCCCAACAGTCAGTCCTGCCACGGGAGAGGTCATCGGCCACGTGGCTGAAGGGGACTGGGCTGACGTGGAT
CTGGCAGCGAAGGCAGCCCGTGCAGCCTTCCGACTGGGGTCTCCATGGCGCTGGATGGATGCCTTGAAGCGAGGCTGGCT
GCTGAACCACCTGGCTGACCTAGTGGAAAGGGATTGTGTCTACTTGGCCTCACTGGAGAGCCTGGACAACGGGAAGCCTT
TCCAAGAGTCTTATGTCTTGGACCTGGATGAGGTCATCAAAGTGTACCGGTACTTTGCTGGCTGGGCTGACAAGTGGCAC
GGCAAGACCATCCCCATGGATGGTGAGCATTTCTGCTTCACCCGGCATGAGCCTGTTGGTGTGTGTTGCCAGATAATCCC
ATGGAACTTCCCCTTGGTCATGCAGAGCTGGAAGCTCGCCCTGGCACTTGCCATGGGCAACACTGTGGTCACGAAGGTGG
CAGAGCAGACACCCTTTTCTGCCCTGTACTTGGCCTCCCTCATCAAGGAGGTGGGCCTTCCCCCCGGGCTGGTGAACATC
GTCACAGGCTATGGCCCAACAGCAGGAGCAGCCATTGCCCATCACATGGATATTGGCAAAGTGGCCTTCACCGGCTCCAC
CAAGGTGGGCCACCTGATCCAGAAGGCCGCCGGCAATTCCAGCCTCAAGAGAGTCACCCTGGAGCTGGGCGGGAAGAGCC
TGAGCATCGTGTTGGCTGATGCCGACATGGACCATGCCGTGGAGCAGCGCCAAGAGGCACTGTTCTTCAACATGGGCCAG
TGCTGCTGTCCGGGTTCCTGGACCTTCATTGAAGAATCCATCTATGATGAGTTTCTGGAGAGAACGGTGGAGAAAGCTAA
GCAGAGGAGAGTCGGGAACCCATTTGATCTGGACACCCAACAGGGGCCCCAGGTGGACAGGGAACGGTTTGAACGAATCC
TGGGCTATATCCAGCTTGGCCAGAAGGAGGGGGCAAAACTTCTCTGCGGTGGGGAGCATTTCAGACAACAATGTTTCTTC
ATCAAGCCCACCGTCTTTGGTGGTGTGCAAGATGACATGAGGATCGCTAGGGAGGAGATCTTCGGGCCCGTGCAGCCACT
CTTTAAGTTCAAGAAGATCGAGGAGGTGATTGAGAGGGCCGACAACACCAGGTATGGCTTGGCTGCTGCTGTGTTCACCC
AGGATCTGGACAAAGCCATGTATTTCACACAGGCACTCCAAACTGGAACAGTGTGGGTAAACACCTACAACGTTGTCACC
TGCCACACGCCATTAGGAGGGTTTAAGGAACCCGGCAATGGGAGGGAGCTGGGGGAAGATGGGCTTAAGGCCTACACAGA
GGTGAAGACGGTCACCATCAAGGTTCCTCAGAAGAACTCATAA

ORF - retro_btau_48 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.03 %
Parental protein coverage: 95. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalAVPTPNQQPEVLYNQIFINNEWHDAVSKKTFPTVNPSTGDVICHVAEGDKADVDRAVKAARAAFQLGSPW
A.P.P...P....NQ.FI.N.WHDAVSKKTFPTV.P.TG.VI.HVAEGD.ADVD.A.KAARAAF.LGSPW
RetrocopyALPSPIPNPDIPDNQLFISNKWHDAVSKKTFPTVSPATGEVIGHVAEGDWADVDLAAKAARAAFRLGSPW
ParentalRRMDASERGRLLNRLADLIERDRTYLAALETLDNGKPYIISYLVDLDMVLKCLRYYAGWADKYHGKTIPI
R.MDA..RG.LLN.LADL.ERD..YLA.LE.LDNGKP...SY..DLD.V.K..RY.AGWADK.HGKTIP.
RetrocopyRWMDALKRGWLLNHLADLVERDCVYLASLESLDNGKPFQESYVLDLDEVIKVYRYFAGWADKWHGKTIPM
ParentalDGDYFSYTRHEPVGVCGQIIPWNFPLLMQAWKLGPALATGNVVVMKVAEQTPLTALYVANLIKEAGFPPG
DG..F..TRHEPVGVC.QIIPWNFPL.MQ.WKL..ALA.GN.VV.KVAEQTP..ALY.A.LIKE.G.PPG
RetrocopyDGEHFCFTRHEPVGVCCQIIPWNFPLVMQSWKLALALAMGNTVVTKVAEQTPFSALYLASLIKEVGLPPG
ParentalVVNVIPGFGPTAGAAIASHEDVDKVAFTGSTEVGHLIQVAAGKSNLKRVTLELGGKSPNIIMSDADMDWA
.VN...G.GPTAGAAIA.H.D..KVAFTGST.VGHLIQ.AAG.S.LKRVTLELGGKS..I...DADMD.A
RetrocopyLVNIVTGYGPTAGAAIAHHMDIGKVAFTGSTKVGHLIQKAAGNSSLKRVTLELGGKSLSIVLADADMDHA
ParentalVEQAHFALFFNQGQCCCAGSRTFVQEDIYAEFVERSVARAKSRVVGNPFDSRTEQGPQVDETQFKKVLGY
VEQ...ALFFN.GQCCC.GS.TF..E.IY.EF.ER.V..AK.R.VGNPFD..T.QGPQVD...F...LGY
RetrocopyVEQRQEALFFNMGQCCCPGSWTFIEESIYDEFLERTVEKAKQRRVGNPFDLDTQQGPQVDRERFERILGY
ParentalIKSGKEEGAKLLCGGGAAADRGYFIQPTVFGDVQDGMTIAKEEIFGPVMQILKFKSMEEVVGRANNSKYG
I..G..EGAKLLCGG........FI.PTVFG.VQD.M.IA.EEIFGPV....KFK..EEV..RA.N..YG
RetrocopyIQLGQKEGAKLLCGGEHFRQQCFFIKPTVFGGVQDDMRIAREEIFGPVQPLFKFKKIEEVIERADNTRYG
ParentalLAAAVFTKDLDKANYLSQALQAGTVWVNCYDVFGAQSPFGGYKLSGSGRELGEYGLQAYTEVKTVTVRVP
LAAAVFT.DLDKA.Y..QALQ.GTVWVN.Y.V.....P.GG.K..G.GRELGE.GL.AYTEVKTVT..VP
RetrocopyLAAAVFTQDLDKAMYFTQALQTGTVWVNTYNVVTCHTPLGGFKEPGNGRELGEDGLKAYTEVKTVTIKVP
ParentalQKNS
QKNS
RetrocopyQKNS

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
ERP005899_liver 0 .43 RPM 365 .74 RPM
ERP005899_muscle 0 .11 RPM 176 .21 RPM
SRP017611_brain 0 .37 RPM 97 .48 RPM
SRP017611_kidney 0 .12 RPM 463 .33 RPM
SRP017611_liver 1 .06 RPM 830 .59 RPM
SRP030211_testis 0 .21 RPM 88 .95 RPM

ChIP-Seq - click to see more details

Bos taurus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_btau_48 retrocopy.

TSS - click to see more details

Bos taurus was not studied using FANTOM5 data.

Lab - click to see more details

retro_btau_48 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_btau_48 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
Rattus norvegicus retro_rnor_307
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 ENSBTAG00000008743 1 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 ENSRNOG000000013441 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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