RetrogeneDB ID:

retro_pvam_779

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_11410:25789..26190(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:LAPTM4A
Ensembl ID:ENSPVAG00000002909
Aliases:None
Description:lysosomal protein transmembrane 4 alpha [Source:HGNC Symbol;Acc:6924]


Retrocopy-Parental alignment summary:






>retro_pvam_779
CATCCAAACTCAATGGCCATTGTCAACATTCAATATGAAGTCACTGGCAATACTGTTAATCTGAGAGAATGGCTAATAAT
GCCTGTGTTTTTTCTGCTGTCTCTCTTCTTATGTTTAGAATCAGTTCAATGCTGGAACATGGAGCAATTTCTTAACCGGT
GGGTTGACTTATTCCATTCTTCTGTTACCAGCTTTTTGACTTTGTTCTCAGCTGCCTAGTTGCTGTCAGTTCTTTCACTT
ATTTGCCAAGAATCAAAGAATACCTGGATCAATCACCTGATTTTCCCTATAAAGATGACCTCTTGGCATTGGACTCCAGC
TGCCTACTGTTCATTGTTCTTGTGTTCTTTGCCTTATTCATCCTTTTTAAGGCTTATCTAATCAACTGTGTTTGGAACTG
T

ORF - retro_pvam_779 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.7 %
Parental protein coverage: 57.51 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalHPNSVPAVNIQYEVIGN-YYSSERMADNACVLFAVSVLMFIISSMLVYGAISYQVGWLIPFFCYRLFDFV
HPNS...VNIQYEV.GN.Y..SERMA.NACV..AVS.LMF.ISSML..GAIS..VG.LIPFFCY.LFDFV
RetrocopyHPNSMAIVNIQYEVTGN<YC*SERMANNACVFSAVSLLMFRISSMLEHGAIS*PVG*LIPFFCYQLFDFV
ParentalLSCLVAISSLTYLPRIKEYLDQLPDFPYKDDLLALDSSCLLFIVLVFFALFIIFKAYLINCVWNC
LSCLVA.SS.TYLPRIKEYLDQ.PDFPYKDDLLALDSSCLLFIVLVFFALFI.FKAYLINCVWNC
RetrocopyLSCLVAVSSFTYLPRIKEYLDQSPDFPYKDDLLALDSSCLLFIVLVFFALFILFKAYLINCVWNC

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






RNA-Seq - click to see more details

Pteropus vampyrus was not studied using RNA-Seq expression data.