RetrogeneDB ID:

retro_pvam_1444

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_8886:35653..36146(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL18
Ensembl ID:ENSPVAG00000009524
Aliases:None
Description:ribosomal protein L18 [Source:HGNC Symbol;Acc:10310]


Retrocopy-Parental alignment summary:






>retro_pvam_1444
TACCTAAGTCTGCTGGTCAAGTTGTACAGGTCTCTAGCCAGATGAACCAACTCCATCTTCAATCTGGTGGTGCTAAAGAG
GTTGTTCATGAGTCACATCAACCAGCCTTCTCTGTCCATATCCTGGATGATCTGGAAGATGAAGCTTCCTGGACAGGAGG
GCAAAATTGCTGTGGTTGTAGGGACTATAACTAATGATGTGTGTGTCCAGGGAGTCCCCAAACTGAAGGTGAGAGCACTT
CGTGTTAGCAGCACATAGAGCAGCATCCTTAAGGCTGGAAGCAAGATCCTCACCTTTGACCTATTGGCCCTGTACTTCCC
CAGGGGCTGAGGCACCGTCCTGCTCTCTGATTTTCGCATGTGGTGAGAAGTGTATAGGCATTTCAGCAAGGCCCCTGGAA
CCCAACACAGCCACACTAAACCCTATATGCACTTCAAGGGCCCAAGGTGTAAGAGAGCCAAAGGCCCATTGGGCCAGCTG
TGGCTACAAAAAC

ORF - retro_pvam_1444 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.69 %
Parental protein coverage: 87.77 %
Number of stop codons detected: 4
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalYLRLLVKLYRFLARRTNSTFNQVVLKRLFMSRTNRPPLSLSRMIRKMKLPGREGKTAVVVGTITDDVRVQ
YL.LLVKLYR.LAR.TNS.FN.VVLKRLFMS..N.P.LS.S.MI.KMKLPG.EGK.AVVVGTIT.DV.VQ
RetrocopyYLSLLVKLYRSLAR*TNSIFNLVVLKRLFMSHINQPSLSISWMIWKMKLPGQEGKIAVVVGTITNDVCVQ
ParentalEVPKLKVCALRVSSRARSRILKAGGKILTFDQLALDSPKGCGTVLLSGPRKGREVYRHFGKAPGTPHSHT
.VPKLKV.ALRVSS...S.ILKAG.KILTFD.LAL..P.G.GTVLLS..R...EVYRHF.KAPGT.HSHT
RetrocopyGVPKLKVRALRVSS-T*SSILKAGSKILTFDLLALYFPRG*GTVLLSDFRMW*EVYRHFSKAPGTQHSHT
ParentalKPYVRSKGRKFERARG-RRASRGYKN
KPY...KG....RA.G...AS.GYKN
RetrocopyKPYMHFKGPRCKRAKG>HWASCGYKN

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_1444 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 26 parental genes, and 155 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000148723 retrocopies
Bos taurus ENSBTAG000000153881 retrocopy
Canis familiaris ENSCAFG000000039677 retrocopies
Choloepus hoffmanni ENSCHOG000000091406 retrocopies
Equus caballus ENSECAG000000219273 retrocopies
Erinaceus europaeus ENSEEUG000000158725 retrocopies
Echinops telfairi ENSETEG000000131576 retrocopies
Felis catus ENSFCAG000000086524 retrocopies
Gorilla gorilla ENSGGOG000000248787 retrocopies
Loxodonta africana ENSLAFG000000312671 retrocopy
Macropus eugenii ENSMEUG000000006401 retrocopy
Myotis lucifugus ENSMLUG0000000928612 retrocopies
Macaca mulatta ENSMMUG000000221583 retrocopies
Monodelphis domestica ENSMODG000000140991 retrocopy
Mustela putorius furoENSMPUG000000038914 retrocopies
Nomascus leucogenys ENSNLEG0000000453711 retrocopies
Otolemur garnettii ENSOGAG0000000356216 retrocopies
Oreochromis niloticus ENSONIG000000065391 retrocopy
Pongo abelii ENSPPYG000000102066 retrocopies
Pteropus vampyrus ENSPVAG00000009524 10 retrocopies
Rattus norvegicus ENSRNOG0000002103514 retrocopies
Sarcophilus harrisii ENSSHAG000000065642 retrocopies
Sus scrofa ENSSSCG000000259285 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000122585 retrocopies
Tupaia belangeri ENSTBEG0000000159418 retrocopies
Tursiops truncatus ENSTTRG000000081873 retrocopies



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