RetrogeneDB ID:

retro_pvam_139

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_1581:9572..9986(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MRPL54
Ensembl ID:ENSPVAG00000007137
Aliases:None
Description:mitochondrial ribosomal protein L54 [Source:HGNC Symbol;Acc:16685]


Retrocopy-Parental alignment summary:






>retro_pvam_139
ATGGCGGCCAAACACCTATTCGGGGCTACCTGGGCCTGGGAGGGCTGGCAGGCTCAGGAGCTCCTTGACCCCACTGTTCC
TGGAAGACTCCTTGGACAGGATTATGCCATGAAACTGGTCATTAAGAGTGGCAAAGGCAGCAAAGGCAGTGTGGTCAGTG
ATGCCCTGAAGGACCCAGAGGTGTGCACAGACTCCGTCCGGCTTACCACGTATGCCATAGGTGTCAACATCTACAAGGAG
TGCCAGGATGTGGTCCTGAAGTTGGAGGCCAAGCATCCTGAGTGGCTGTTTCAGATGAATGTGGGTCCCCCAGCAAAGAA
GCTAGAGGAACTGAACCATGAGACCTGGGAGTACTAGTGGCTGCTGCGGAAACATAACATCTGGTGCCACAATGGGCTGA
GCAAGAACCAAAAG

ORF - retro_pvam_139 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 59.42 %
Parental protein coverage: 99.26 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAARHLFGATRTWAGWRVQQLPGPAASGRVFGRNYAKKPVIKD-KGSKGGVLSDALNDP-VCTDPVRLTT
MAA.HLFGAT..W.GW..Q.L..P...GR..G..YA.K.VIK..KGSKG.V.SDAL.DP.VCTD.VRLTT
RetrocopyMAAKHLFGATWAWEGWQAQELLDPTVPGRLLGQDYAMKLVIKSGKGSKGSVVSDALKDPEVCTDSVRLTT
ParentalHAMGVNXXXXXXXXXXXXXXXXXXXLFQVNVGPP-KKLEELDPETREYWRLLRKHNIWRHNRLSKNRK
.A.GVN...................LFQ.NVGPP.KKLEEL..ET.EY..LLRKHNIW.HN.LSKN.K
RetrocopyYAIGVNIYKECQDVVLKLEAKHPEWLFQMNVGPPAKKLEELNHETWEY*WLLRKHNIWCHNGLSKNQK

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_139 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 4 parental genes, and 4 retrocopies.

Species Parental gene accession Retrocopies number
Otolemur garnettii ENSOGAG000000335191 retrocopy
Pteropus vampyrus ENSPVAG00000007137 1 retrocopy
retro_pvam_139 ,
Rattus norvegicus ENSRNOG000000204641 retrocopy
Tupaia belangeri ENSTBEG000000047451 retrocopy



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