RetrogeneDB ID:

retro_pvam_242

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_2096:86104..86491(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TPT1
Ensembl ID:ENSPVAG00000003191
Aliases:None
Description:tumor protein, translationally-controlled 1 [Source:HGNC Symbol;Acc:12022]


Retrocopy-Parental alignment summary:






>retro_pvam_242
ATGTTTATCTACCTAGACCTCATCAGCTAAAATGAGATGTTCTCCAACATTTACAAGATCCGGGAGATTGTTTACAGGCT
GTGCCTGGGGGTGGAGGGGAAGATGGTCAGTAAGACAGAGAGTAACATTGATGATTCGCTCATTGGTGGAAATGCCTTCT
CTGAAGGCACAGAGGGCGAAGGTACTGAAAGCACAGTAATCACTGTTGTCGATATTGTCATGAACCATAATTTGCTGGAA
ATCAGCTTCGCAAAATAAGCCTACAAGAAGTAGATTAAAGGTTAAATGATATCGATCAAAGGGAAACTTGAAGAACAGAG
ACCGAAAAGAGTAAAACCATCTATGCCAGGGGCTACAGAAGGAATCGAGCACATCCTTGCTAATTTC

ORF - retro_pvam_242 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.97 %
Parental protein coverage: 69.35 %
Number of stop codons detected: 4
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMIIYRDLISHDEMFSDIYKIREIADGLCLEVEGKMVSRTEGNIDDSLIGGNASAEGPDGEGTESTVITGV
M.IY.DLIS..EMFS.IYKIREI...LCL.VEGKMVS.TE.NIDDSLIGGNA..EG..GEGTESTVIT.V
RetrocopyMFIYLDLIS*NEMFSNIYKIREIVYRLCLGVEGKMVSKTESNIDDSLIGGNAFSEGTEGEGTESTVITVV
ParentalDIVMNHHLQETSFTKEAYKKYIKDYMKSIKGKLEEQRPERVKPFMTGAAEQIKHILANF
DIVMNH.L.E.SF.K.AYKK.IK..M.SIKGKLEEQRP.RVKP.M.GA.E.I.HILANF
RetrocopyDIVMNHNLLEISFAK*AYKK*IKG*MISIKGKLEEQRPKRVKPSMPGATEGIEHILANF

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






Pteropus vampyrus was not studied using RNA-Seq expression data.
Pteropus vampyrus was not studied using ChIP-Seq data.
Pteropus vampyrus was not studied using EST data.
Pteropus vampyrus was not studied using FANTOM5 data.
retro_pvam_242 was not experimentally validated.

Retrocopy orthology:
Pteropus vampyrus 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 13 parental genes, and 79 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000065312 retrocopies
Cavia porcellus ENSCPOG0000000927812 retrocopies
Dasypus novemcinctus ENSDNOG0000000065322 retrocopies
Dipodomys ordii ENSDORG000000085182 retrocopies
Echinops telfairi ENSETEG000000030913 retrocopies
Latimeria chalumnae ENSLACG000000043062 retrocopies
Myotis lucifugus ENSMLUG000000177091 retrocopy
Monodelphis domestica ENSMODG000000149402 retrocopies
Mus musculus ENSMUSG000000601268 retrocopies
Oryctolagus cuniculus ENSOCUG000000236922 retrocopies
Pteropus vampyrus ENSPVAG00000003191 15 retrocopies
Rattus norvegicus ENSRNOG000000010497 retrocopies
Sarcophilus harrisii ENSSHAG000000015451 retrocopy



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