RetrogeneDB ID:

retro_pvam_1022

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_2305:120932..121378(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NOL12
Ensembl ID:ENSPVAG00000010097
Aliases:None
Description:nucleolar protein 12 [Source:HGNC Symbol;Acc:28585]


Retrocopy-Parental alignment summary:






>retro_pvam_1022
TACTCAGCACACCTGAAGATGCTGGCAGAGAGAGAGGAGGTGCTGGAGGCGCAGATGAGCTGGACTGGCTGGTGACAGGA
CAGACTGAGTGGGTGCAATATGACCACTCCAGCCTCACAGTCACAACGTCACCAGCAGCAGCCTGGAGCTCTCGGGGGCC
TGGCTACTGGGACTGCCACTACCTGAAAAAGCGGTTGGGCACTTGTCCAGGAGGTGTCACCCAGAGAGGCCGAGAAAAGT
CTTGCCTAGGAAGTCCAGAGATTCCTGCTATCCTAATGGATATTTTTCTTTACTGCATAAGCATCGCCACCCACGCAGTC
GCAAAAAAGTCAAGAAGAAACATCCCGAAAGGTCTCGGGACTTCACCAAGAAGCCCTTAAGTGTCATTCGTAACCAACAA
GATCCAGTGCTGCCGGATGACAGCCAAAGCCCGGCACAGAAGACAG

ORF - retro_pvam_1022 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 52.6 %
Parental protein coverage: 70.09 %
Number of stop codons detected: 0
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalHQEYLKMLAEREEALEE-ADELDRLVTAKTESVQYDHPNHTVTVT-TISDLDLSGARLLGLLPPEQEAGY
....LKMLAEREE.LE..ADELD.LVT..TE.VQYDH...TVT...T.S.L.LSGA.LLGL..PE...G.
RetrocopyYSAHLKMLAEREEVLEA<ADELDWLVTGQTEWVQYDHSSLTVTTS<TSSSLELSGAWLLGLPLPEKAVGH
ParentalGSEEEASSMEKPTKALPRKSRDPLLSQRISSLTAS-LHAHSRKKVKRKHPRHAQDSTKKPPSATR-TSKT
.S.......E.P.K.LPRKSRD........SL.....H..SRKKVK.KHP....D.TKKP.S..R.T.K.
RetrocopyLSRR--CHPERPRKVLPRKSRDSCYPNGYFSLLHKHRHPRSRKKVKKKHPERSRDFTKKPLSVIR>TNKI
ParentalQRRRLTGKSQHNRE
Q..R.T.K..H.R.
RetrocopyQCCRMTAKARHRRQ

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_1022 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 9 parental genes, and 9 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000101391 retrocopy
Callithrix jacchus ENSCJAG000000124871 retrocopy
Equus caballus ENSECAG000000110501 retrocopy
Felis catus ENSFCAG000000042731 retrocopy
Oryctolagus cuniculus ENSOCUG000000170131 retrocopy
Otolemur garnettii ENSOGAG000000082551 retrocopy
Pteropus vampyrus ENSPVAG00000010097 1 retrocopy
retro_pvam_1022 ,
Tupaia belangeri ENSTBEG000000097451 retrocopy
Tursiops truncatus ENSTTRG000000047991 retrocopy



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