RetrogeneDB ID:

retro_pvam_540

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_3650:51310..51829(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL7A
Ensembl ID:ENSPVAG00000017045
Aliases:None
Description:ribosomal protein L7a [Source:HGNC Symbol;Acc:10364]


Retrocopy-Parental alignment summary:






>retro_pvam_540
ATGCCAAAGGGAAAGAAAGCTAAGGGGAAGAAGGTGGCTCCGGCACCTGCTTTCATGAAGAAGGAGGAGATAAAGAAGGT
GGTAAATCCCCTACTTGAGAAAAGACCCAAGAATTTTGTCATTGGACAGGGCATTCATCCCAGAAGGGACCTCACCTGCT
TTGTTAAATGGCCCCGCCATATTCTACTGCAGTGGCAAAAGGCTATTCTCTGTAAGCTCCTGAAAGTGCCTCCTGCGATT
AACCAGTTCACCTAGGTCTTGGACCACTAAACAGTTACTTAATTGCTTAAGCTGGACCACAAATACATAGCAAGAGTAGA
AGTAGATTGTTGGCTCAGGCTGAGGAAAAAAGGTGCTGGCAAAAGGGATGACCCCACCAAGAGACCATCTGTCCTTTGAG
CAAGAGTTAATTCTGTCACCACTTTGATAGAGAATAATCAGCTGGTAGTGATTACACATGATGTGGATCCCATTAAACTG
GTTGTCTTCCTGTCTGCCTTGTGCTGTAAGATGGTGGTG

ORF - retro_pvam_540 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.16 %
Parental protein coverage: 67.29 %
Number of stop codons detected: 4
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMPKGKKAKGKKVAPAPAVVKKQEAKKVVNPLFEKRPKNFGIGQDIQPKRDLTRFVKWPRYIRLQRQRAIL
MPKGKKAKGKKVAPAPA..KK.E.KKVVNPL.EKRPKNF.IGQ.I.P.RDLT.FVKWPR.I.LQ.Q.AIL
RetrocopyMPKGKKAKGKKVAPAPAFMKKEEIKKVVNPLLEKRPKNFVIGQGIHPRRDLTCFVKWPRHILLQWQKAIL
ParentalYKRLKVPPAINQFTQALDRQTATQLLKLAHKYRPETKQEKKQRLLARAEKKAAGKGDVPTKRPPVLRAGV
.K.LKVPPAINQFT..LD..T.T.LLKL.HKY..........RL.....K.A....D.PTKRP.VL.A.V
RetrocopyCKLLKVPPAINQFT*VLDH*TVT*LLKLDHKYIARVEVDCWLRL---RKKGAGKRDD-PTKRPSVL*ARV
ParentalNTVTTLVENKKAQLVVIAHDVDPIELVVFLPALCRKMGV
N.VTTL.EN...QLVVI.HDVDPI.LVVFL.ALC.KM.V
RetrocopyNSVTTLIENN--QLVVITHDVDPIKLVVFLSALCCKMVV

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_540 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 22 parental genes, and 289 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000001170829 retrocopies
Bos taurus ENSBTAG000000115595 retrocopies
Canis familiaris ENSCAFG0000001768036 retrocopies
Callithrix jacchus ENSCJAG000000148273 retrocopies
Dipodomys ordii ENSDORG000000064713 retrocopies
Equus caballus ENSECAG000000085482 retrocopies
Felis catus ENSFCAG0000000582520 retrocopies
Homo sapiens ENSG0000014830321 retrocopies
Gorilla gorilla ENSGGOG0000001444248 retrocopies
Loxodonta africana ENSLAFG000000064362 retrocopies
Macropus eugenii ENSMEUG0000001455016 retrocopies
Macaca mulatta ENSMMUG000000223419 retrocopies
Monodelphis domestica ENSMODG000000127543 retrocopies
Mustela putorius furoENSMPUG0000001239813 retrocopies
Mus musculus ENSMUSG0000006264710 retrocopies
Nomascus leucogenys ENSNLEG0000001306822 retrocopies
Otolemur garnettii ENSOGAG0000001402716 retrocopies
Pteropus vampyrus ENSPVAG00000017045 11 retrocopies
Rattus norvegicus ENSRNOG0000004909710 retrocopies
Sarcophilus harrisii ENSSHAG000000043374 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000036713 retrocopies
Tursiops truncatus ENSTTRG000000076453 retrocopies



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