RetrogeneDB ID:

retro_amel_93

Retrocopy
location
Organism:Panda (Ailuropoda melanoleuca)
Coordinates:GL193330.1:5961..7698(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSAMEG00000018504
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:GALNT12
Ensembl ID:ENSAMEG00000004520
Aliases:None
Description:UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 12 (GalNAc-T12) [Source:HGNC Symbol;Acc:19877]


Retrocopy-Parental alignment summary:






>retro_amel_93
ATGGCCGTGAGGTGGACCTGGGCAGGCAAAAGCTGTCTGTTGCTGGCGCTTTTAACAGTGGCCTATATCCTGGTGGAACT
CTCGGTCTCTACTTTCCATGCCTCCCCAGCAGCCGACCTTTCCAGGGAGCGGGGGCCAAAACAGCTTTCAGACCCCTGGG
AAAAGGCTGAGGATTTGTCTCGACCGCTCTATAAGAAGCCCCCTGCAGACTCGCATGCACTTGGGGAGTGGGGGAAAGCC
AGCAAACTCCAGCTCAGCGAGGGTGAATTGAAGCAGCAAGAAGAACTTATTGAGAGATATGCCATTAATATTTATCTCAG
TGACAGGATTTCCCTGCATCGCCACATAGAGGATAAAAGAATGTATGAGTGTAAATCCAGGAAGTTTGATTATAGGAGAC
TTCCCACCACCTCTGTTATCATTGCTTTCTATAATGAAGCCTGGTCGACTTTGCTCCGCACCATCCACAGTGTTTTAGAA
ACTTCTCCTGCGGTCCTTTTGAAGGAGATCATCTTAGTGGATGACTTGAGTGACAGAGTTTATTTGAAGACACAGCTTGA
AACTTACATCAGCAATCTTGATAGAGTCCGCTTGATTAGAACAAATAAGCGGGAGGGGCTGGTTAGAGCCCGCCTGATTG
GGGCCACGTTTGCCACTGGGGATGTCCTCACTTTCCTGGATTGTCACTGTGAGTGTAATTCTGGTTGGTTAGAACCACTT
TTGGAAAGAATTAGTAAAGATGAGACGACAGTTGTTTGTCCTGTTATAGACACCATTGATTGGAATACTTTTGAATTCTA
TATGCAGACTGGGGAGCCCATGATTGGTGGATTTGACTGGCGCTTAACTTTCCAGTGGCATTCTGTCCCCAAACATGAAA
GGGACAGACGGAAATCGAGAATTGACCCGATCAGATCACCTACCATGGCTGGAGGACTGTTTGCTGTCAGCAAGAAATAT
TTTCAGTACCTTGGAACATACGACACTGGAATGGAAGTGTGGGGAGGTGAAAACCTTGAGCTGTCTTTTAGGGTGTGGCA
GTGTGGAGGTAAATTGGAGATCCACCCGTGTTCCCATGTGGGCCATGTATTCCCCAAGCGGGCGCCATATGCTCGGCCCA
ATTTCCTACAGAATACTGCTCGGGCAGCGGAAGTGTGGATGGACGAGTACAAAGAACATTTCTACAATCGAAACCCTCCA
GCAAGGAAAGAAGCTTATGGTGATATTTCTGAAAGAAAATTACTACGAGAACGGCTGAAGTGCCAGAGTTTTGACTGGTA
TTTGAAAAACGTGTTTTCTAATTTACACGTTCCAGAGGATAGGCCAGGCTGGCATGGAGCTGTTCGCAGTATGGGAATCT
CTTCTGAATGTTTAGATTATAATTCTCCTGACAACAATCCCACAGGTGCTAACCTTTCCCTGTTTGGATGCCATGGTCAA
GGAGGCAATCAATTCTTTGAATATACTTCAAACAAAGAAATAAGGTTTAACTCTGTGACAGAGTTATGTGCAGAGGTTCC
TGAGCAAAAAAAATATGTAGGAATGCAAAATTGTCCAAAAGATGGGTTCCCTATCCCAGCAAACATTATTTGGCATTTTA
AAGAAGATGGAACCATTTTTCATCCACACTCGGGGCTGTGTCTTAGTGCTTTTCGGACACCTGAGGGTCGGCCTGATGTT
CAGATGAGAACTTGTGACGCTCTAGATAAAAATCAAATCTGGAAGTTTGAGAAATAG

ORF - retro_amel_93 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 59.56 %
Parental protein coverage: 99.4 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalQLRGEELRLQEESVRLHQINIYLSDRISLHRRLPERWNPLCKEKKYDYNNLPTTSVIIAFYNEAWSTLLR
QL...EL..QEE......INIYLSDRISLHR.........CK..K.DY..LPTTSVIIAFYNEAWSTLLR
RetrocopyQLSEGELKQQEELIERYAINIYLSDRISLHRHIEDKRMYECKSRKFDYRRLPTTSVIIAFYNEAWSTLLR
ParentalTVYSVLETSPDILLEEVILVDDYSDREHLKERLANELSGLPKVRLIRANRREGLVRARLLGASAAKGEVL
T..SVLETSP..LL.E.ILVDD.SDR..LK..L....S.L..VRLIR.N.REGLVRARL.GA..A.G.VL
RetrocopyTIHSVLETSPAVLLKEIILVDDLSDRVYLKTQLETYISNLDRVRLIRTNKREGLVRARLIGATFATGDVL
ParentalTFLDCHCECHEGWLEPLLQRIHEEESAVVCPVIDVIDWNTFEYLGNPGEPQIGGFDWRLVFTWHVVPERE
TFLDCHCEC..GWLEPLL.RI...E..VVCPVID.IDWNTFE.....GEP.IGGFDWRL.F.WH.VP..E
RetrocopyTFLDCHCECNSGWLEPLLERISKDETTVVCPVIDTIDWNTFEFYMQTGEPMIGGFDWRLTFQWHSVPKHE
ParentalRMRMRSPVDVIRSPTMAGGLFAVSKKYFEYLGSYDTGMEVWGGENLEFSFRIWQCGGTLETHPCSHVGHV
R.R..S..D.IRSPTMAGGLFAVSKKYF.YLG.YDTGMEVWGGENLE.SFR.WQCGG.LE.HPCSHVGHV
RetrocopyRDRRKSRIDPIRSPTMAGGLFAVSKKYFQYLGTYDTGMEVWGGENLELSFRVWQCGGKLEIHPCSHVGHV
ParentalFPKQAPYSRNKALANSVRAAEVWMDEFKELYYHRNPHARLEPFGDVTERKQLRARLQCKDFRWFLENVYP
FPK.APY.R...L.N..RAAEVWMDE.KE..Y.RNP.AR.E..GD..ERK.LR.RL.C..F.W.L.NV..
RetrocopyFPKRAPYARPNFLQNTARAAEVWMDEYKEHFYNRNPPARKEAYGDISERKLLRERLKCQSFDWYLKNVFS
ParentalELHVPEDRPGFFGMLQNKGLKDYCFDYNPPNENQIVGHQVLLYLCHGLGQNQFFEYTSQEEIRYNTHQPE
.LHVPEDRPG..G.....G....C.DYN.P..N...G....L..CHG.G.NQFFEYTS..EIR.N....E
RetrocopyNLHVPEDRPGWHGAVRSMGISSECLDYNSPDNNP-TGANLSLFGCHGQGGNQFFEYTSNKEIRFNS-VTE
ParentalACIAVEAGKDVLIMSLCQETA---PENQKFTLQEDGSLFHAQSNKCVQAERKAFSDSFVPLLRDCTDSEH
.C..V...K....M..C.......P.N......EDG..FH..S..C..A.R.......V...........
RetrocopyLCAEVPEQKKYVGMQNCPKDGFPIPANIIWHFKEDGTIFHPHSGLCLSAFRTPEGRPDVQMRTCDALDKN
ParentalQKWLFKE
Q.W.F..
RetrocopyQIWKFEK

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






Ailuropoda melanoleuca was not studied using RNA-Seq expression data.
Ailuropoda melanoleuca was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_amel_93 retrocopy.
Ailuropoda melanoleuca was not studied using FANTOM5 data.
retro_amel_93 was not experimentally validated.

Retrocopy orthology:
Ailuropoda melanoleuca 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 33 parental genes, and 37 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000023021 retrocopy
Ailuropoda melanoleuca ENSAMEG00000004520 1 retrocopy
retro_amel_93 ,
Anas platyrhynchos ENSAPLG000000121971 retrocopy
Bos taurus ENSBTAG000000090371 retrocopy
Canis familiaris ENSCAFG000000024941 retrocopy
Cavia porcellus ENSCPOG000000124181 retrocopy
Equus caballus ENSECAG000000165461 retrocopy
Ficedula albicollis ENSFALG000000051881 retrocopy
Felis catus ENSFCAG000000088311 retrocopy
Gorilla gorilla ENSGGOG000000057921 retrocopy
Loxodonta africana ENSLAFG000000220111 retrocopy
Meleagris gallopavo ENSMGAG000000072441 retrocopy
Microcebus murinus ENSMICG000000110751 retrocopy
Myotis lucifugus ENSMLUG000000026301 retrocopy
Macaca mulatta ENSMMUG000000195611 retrocopy
Mustela putorius furoENSMPUG000000065021 retrocopy
Mus musculus ENSMUSG000000397741 retrocopy
Nomascus leucogenys ENSNLEG000000170191 retrocopy
Oryctolagus cuniculus ENSOCUG000000162211 retrocopy
Otolemur garnettii ENSOGAG000000014082 retrocopies
Ochotona princeps ENSOPRG000000060292 retrocopies
Procavia capensis ENSPCAG000000050681 retrocopy
Pongo abelii ENSPPYG000000194371 retrocopy
Pelodiscus sinensis ENSPSIG000000172461 retrocopy
Pan troglodytes ENSPTRG000000211801 retrocopy
Pteropus vampyrus ENSPVAG000000087741 retrocopy
Rattus norvegicus ENSRNOG000000080993 retrocopies
Sarcophilus harrisii ENSSHAG000000174741 retrocopy
Sus scrofa ENSSSCG000000053791 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000213061 retrocopy
Tupaia belangeri ENSTBEG000000036271 retrocopy
Tarsius syrichta ENSTSYG000000049751 retrocopy
Tursiops truncatus ENSTTRG000000108481 retrocopy



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