RetrogeneDB ID:

retro_pvam_708

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_898:84036..84362(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS18
Ensembl ID:ENSPVAG00000001902
Aliases:None
Description:ribosomal protein S18 [Source:HGNC Symbol;Acc:10401]


Retrocopy-Parental alignment summary:






>retro_pvam_708
ATGTCTCTAGTGATCCCTGAGAAATTCTAGCACATTTTATGAGTACTCAACACCAATGTTAATGGGCAGCGGAAAACAGC
CTTTGCCTTCACTGCAGTTGAGGGTGTGGGGTGAAGATATGCTCATGTGGTGTCGAGGAAAGTGGACAGCAACTTCACCA
AGAGGGCGGGAGAGCTCACTGAGGGTAAGGTGGACGTGCCATCACCATTATGCAGAATCCATGCCCGCACAAGATCCCAG
ACTGGTTCTTGAACAGACAGAAGGACGTGAAGGCTGAGGAACAGAGCCAGGTCCTAGCCAATGGTCTGGACAACAAGCTC
TGTGAA

ORF - retro_pvam_708 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.55 %
Parental protein coverage: 71.71 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMSLVIPEKFQHILRVLNTNIDGRRKIAFAITAIKGVGRRYAHVVLRKADIDLTKRAGELTEDEVE-RVIT
MSLVIPEKF.HIL.VLNTN..G.RK.AFA.TA..GVG.RYAHVV.RK.D...TKRAGELTE..V..R.IT
RetrocopyMSLVIPEKF*HIL*VLNTNVNGQRKTAFAFTAVEGVG*RYAHVVSRKVDSNFTKRAGELTEGKVD<RAIT
ParentalIMQNPRQYKIPDWFLNRQKDVKDGKYSQVLANGLDNKLRE
IMQNP...KIPDWFLNRQKDVK....SQVLANGLDNKL.E
RetrocopyIMQNPCPHKIPDWFLNRQKDVKAEEQSQVLANGLDNKLCE

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_708 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 21 parental genes, and 134 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000026482 retrocopies
Callithrix jacchus ENSCJAG000000216505 retrocopies
Dasypus novemcinctus ENSDNOG0000001208413 retrocopies
Erinaceus europaeus ENSEEUG000000102978 retrocopies
Homo sapiens ENSG000002315002 retrocopies
Gorilla gorilla ENSGGOG000000065715 retrocopies
Loxodonta africana ENSLAFG000000321731 retrocopy
Macropus eugenii ENSMEUG0000001677011 retrocopies
Myotis lucifugus ENSMLUG000000073602 retrocopies
Macaca mulatta ENSMMUG000000038671 retrocopy
Oryctolagus cuniculus ENSOCUG000000105461 retrocopy
Otolemur garnettii ENSOGAG000000062257 retrocopies
Pongo abelii ENSPPYG0000002595314 retrocopies
Pan troglodytes ENSPTRG000000180391 retrocopy
Pteropus vampyrus ENSPVAG00000001902 6 retrocopies
Rattus norvegicus ENSRNOG000000285054 retrocopies
Sarcophilus harrisii ENSSHAG000000068572 retrocopies
Sarcophilus harrisii ENSSHAG000000086581 retrocopy
Sus scrofa ENSSSCG000000015025 retrocopies
Tupaia belangeri ENSTBEG0000001270840 retrocopies
Tursiops truncatus ENSTTRG000000043023 retrocopies



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