RetrogeneDB ID:

retro_amel_51

Retrocopy
location
Organism:Panda (Ailuropoda melanoleuca)
Coordinates:GL192407.1:2469004..2470558(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSAMEG00000018686
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSAMEG00000013664
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_amel_51
ATGCTGCGCTTCCTGGTGCCCCGGTGGCTTCGCCTTCATGGCAGGACCTCCCCATACTCTTCTGCAGCAGCCCTTCCAAG
CCCCATCCCAAACCCAGACATCCATTACAACCAGCTGTTCGTCAACAATGAGTGGCAAGATGCAGCCAGCAAGAAGACCT
TCCCGACAGTGAACCCCGCCACAGGAGAGGTCATTGGCCATGTGGCTGAAGGAGACCGGGCTGATGTGGATCGGGCAGTG
AAAGCAGCCCGCGAGGCCTTCCGCCTGGGGTCTCCATGGCGCCGGATGGATGCCTCGGAGCGCGGCCGGCTGCTAAACCG
CCTGGCCGACCTAGTGGAGCGGGATCGTGTCTACCTGGCCTCACTGGAGACTTTGGACAATGGGAAGCCTTTCCAGGAGT
CTTATGCCTTGGACCTGGATGAGGTCATCAAAGTGTACCGGTACTTTGCTGGCTGGGCTGACAAGTGGCACGGCAAGACC
ATCCCCATGGATGGCAAGCATTTCTGCTTCACCCGGCATGAGCCTGTTGGCGTCTGCGGCCAGATAATCCCATGGAACTT
CCCCTTGGTCATGCAGGGCTGGAAGCTTGCCCCCGCGCTGGCCACCGGCAACACTGTGGTCATGAAGGTGGCAGAGCAGA
CCCCCCTTTCTGCGCTGTACTTGGCCTCCCTCATCAAAGAGGTGGGCTTTCCCCCCGGGGTGGTGAACATCATCACTGGC
TACGGCCCAACGGCCGGGGCAGCCATCGCCCCGCCCATGGGTATCGACAAAGTTGCCTTCACCGGCTCTACTGAGGTGGG
CCACCTGATCCAGAAGGCGGCCGGTGATTCCAACCTGAAGAGAGTCACCCTGGAGCTGGGTGGGAAGAGCCCCAGCATCG
TGTTGGCCGACGCGGACATGGACCATGCCGTGGAGCAGTGCCACGAAGCCCTGTTCTTCAACATGGGCCAGTGCTGCTGT
GCGGGCTCCCGGACCTTCGTCGAAGAATCCATCTATGACGAATTTCTTGAGAGAACCGTGGAGAAGGCTAAGCAGAGAAG
AGTTGGGAACCCCTTTGAGCTGGACACCCAGCAGGGGCCCCAGGTGGACAAGGAGCAGTTTGAGCGAATCCTGAGCTACA
TCCGGCTTGGCCAGAAGGAGGGGGCCAAACTTCTCTGCGGGGGGGAGCGTTTTGGGGAGCGTGGTTTCTTCATCAAGCCC
ACGGTCTTTGGTGGCGTGAAGGATGACATGAGGATCGCCAGAGAGGAGATCTTCTGGCCTGTGCAGCCCTTATTTAAATT
CAAGAAGATGGAGGAGGTAATCGAGAGGGCCAACAACACCAGGTATGGCTTGGCTGCTGCCGTGTTCACCCAGGACCTGG
ACAAGGCCATGTACTTCACGCAGGCACTCCAGGCTGGCACAGTGTGGGTAAACACCTACAACATTGTCACCTGCCACACG
CCCTTCGGAGGGTTTAAGGAATCTGGGAATGGGAGGGAGCTGGGGGAGGACGGGCTTAAGGCCTACACGGAGGTGAAGAC
AGTTACCATCAAGATCCGTCAAAAGAACTCGTAG

ORF - retro_amel_51 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 72.69 %
Parental protein coverage: 95.59 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalAATQAVPAPNQQPEVFYNQIFINNEWHDAVSKKTFPTINPSTGEVICQVAEGDKEDVDRAVKAARAAFQL
....A.P.P...P...YNQ.F.NNEW.DA.SKKTFPT.NP.TGEVI..VAEGD..DVDRAVKAAR.AF.L
RetrocopySSAAALPSPIPNPDIHYNQLFVNNEWQDAASKKTFPTVNPATGEVIGHVAEGDRADVDRAVKAAREAFRL
ParentalGSPWRRMDASDRGRLLNRLADLIERDRTYLAALETLDNGKPYVTSYLVDLDMVLKCFRYYAGWADKYHGK
GSPWRRMDAS.RGRLLNRLADL.ERDR.YLA.LETLDNGKP...SY..DLD.V.K..RY.AGWADK.HGK
RetrocopyGSPWRRMDASERGRLLNRLADLVERDRVYLASLETLDNGKPFQESYALDLDEVIKVYRYFAGWADKWHGK
ParentalTIPIDGDFFSYTRHEPVGVCGQIIPWNFPLLMQAWKLGPALATGNVVVMKVAEQTPLTALYVANLIKEAG
TIP.DG..F..TRHEPVGVCGQIIPWNFPL.MQ.WKL.PALATGN.VVMKVAEQTPL.ALY.A.LIKE.G
RetrocopyTIPMDGKHFCFTRHEPVGVCGQIIPWNFPLVMQGWKLAPALATGNTVVMKVAEQTPLSALYLASLIKEVG
ParentalFPPGVVNIIPGFGPTAGAAIASHEDVDKVAFTGSTEVGHLVQVAAGNSNLKRVTLELGGKSPNIIMSDAD
FPPGVVNII.G.GPTAGAAIA.....DKVAFTGSTEVGHL.Q.AAG.SNLKRVTLELGGKSP.I...DAD
RetrocopyFPPGVVNIITGYGPTAGAAIAPPMGIDKVAFTGSTEVGHLIQKAAGDSNLKRVTLELGGKSPSIVLADAD
ParentalMNWAVEQAHFALFFNQGQCCCAGSRTFVQEDVYSEFVERSVARAKSRVVGNPFDSQTEQGPQVDETQFKK
M..AVEQ.H.ALFFN.GQCCCAGSRTFV.E..Y.EF.ER.V..AK.R.VGNPF...T.QGPQVD..QF..
RetrocopyMDHAVEQCHEALFFNMGQCCCAGSRTFVEESIYDEFLERTVEKAKQRRVGNPFELDTQQGPQVDKEQFER
ParentalVLGYIKSGKDEGAKLLCGGGAAADRGYFIQPTVFGDVQDSMTIAREEIFGPVMQILKFKTIEEVIGRANN
.L.YI..G..EGAKLLCGG.....RG.FI.PTVFG.V.D.M.IAREEIF.PV....KFK..EEVI.RANN
RetrocopyILSYIRLGQKEGAKLLCGGERFGERGFFIKPTVFGGVKDDMRIAREEIFWPVQPLFKFKKMEEVIERANN
ParentalSKYGLAAAVFTKDLDKANYLSQALQAGTVWVNCYDVFGAQSPFGGYKMSGSGRELGEYGLQAYTEVKTVT
..YGLAAAVFT.DLDKA.Y..QALQAGTVWVN.Y.......PFGG.K.SG.GRELGE.GL.AYTEVKTVT
RetrocopyTRYGLAAAVFTQDLDKAMYFTQALQAGTVWVNTYNIVTCHTPFGGFKESGNGRELGEDGLKAYTEVKTVT
ParentalVKVPQKNS
.K..QKNS
RetrocopyIKIRQKNS

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






RNA-Seq - click to see more details

Ailuropoda melanoleuca was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Ailuropoda melanoleuca was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_amel_51 retrocopy.

TSS - click to see more details

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab - click to see more details

retro_amel_51 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 21 parental genes, and 22 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG00000013664 1 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 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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