RetrogeneDB ID:

retro_pvam_706

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_885:134299..134901(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NT5C3A
Ensembl ID:ENSPVAG00000013182
Aliases:None
Description:5'-nucleotidase, cytosolic IIIA [Source:HGNC Symbol;Acc:17820]


Retrocopy-Parental alignment summary:






>retro_pvam_706
GTGAAAATGATGCCAGAATTCTGGAAAAGTTCAGTTTGCATCAAGAACTCCACAAGAAGAGTAGAAGAAATTATCTGTGG
TCTTATCAAAGGAGAAGCTGTTAAACTTCAGATAGTAACAGACTTTGTATGACACTGAGTAGATTTTCCTAGAAAAGGAA
AAGATCACCAACATGTCATAATATCATTGACAACAGAAAGCTAGTTCCAGATAAACGTCAAAAAAAGCTACTGCAACAAA
GGAAAAATATGCTATTGAAATTGATCCTATTTTTACCATAGAAGTACTCTTATATGGTAGAATGGTATAGTAAATCACAT
GGTTTGCTTGTTGAACAAGCTTTACCGAAAGCTAAACTTAAAGAAATTGTGGCAGAATCTGATGTTATGCTCAAGGAAGA
GTAAGAGAATTTCTTTGATAGACTATAACCACATAGTATCCCTGTGTTCATATTTTCAGCTGGTATCAGTGATGTCCTAG
AGGAGATTATCCATCAAACTGGTGTTTATTATCCAAATGTCAAATTAGTGTCCAACTTCATGGATTTTGATGACAATGGG
GTGCTCGAAGAATTTAAAGGAGGACTAATGTATTTAACAAAC

ORF - retro_pvam_706 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 67.8 %
Parental protein coverage: 60.6 %
Number of stop codons detected: 4
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalIEMMPELQKNSVRIKNPTR-VEEILCGLIKGGAVKLQIITDFD-MTLSRFSYEGKRCPTCHNVIDNCKLV
..MMPE..K.SV.IKN.TR.VEEI.CGLIKG.AVKLQI.TDF..MTLSRFS...KR.PTCHN.IDN.KLV
RetrocopyVKMMPEFWKSSVCIKNSTRRVEEIICGLIKGEAVKLQIVTDFV<MTLSRFS*KRKRSPTCHNIIDNRKLV
ParentalSDECRKKLLQLKEKYYAIEIDPLLTVEEKFPHMEEWYTKSHSLLVEQALPKDKLREIVAESDVMLKEGYE
.D..R.K.L....K.........L....K...M.EWY.KSH.LLVEQALPK.KL.EIVAESDVMLKE..E
RetrocopyPDK-RQKKLLQQRKNMLLKL--ILFLP*KYSYMVEWYSKSHGLLVEQALPKAKLKEIVAESDVMLKEE*E
ParentalKFFDRLQQHSVPVFIFSAGIGDVLEEIIRQAGVYYPNVKVVSNFMDFDDNGVLKGFKGELIHVFN
.FFDRL..HS.PVFIFSAGI.DVLEEII.Q.GVYYPNVK.VSNFMDFDDNGVL..FKG.L....N
RetrocopyNFFDRL*PHSIPVFIFSAGISDVLEEIIHQTGVYYPNVKLVSNFMDFDDNGVLEEFKGGLMYLTN

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_706 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 12 parental genes, and 15 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000066241 retrocopy
Bos taurus ENSBTAG000000167091 retrocopy
Canis familiaris ENSCAFG000000031541 retrocopy
Equus caballus ENSECAG000000117771 retrocopy
Homo sapiens ENSG000001226431 retrocopy
Gorilla gorilla ENSGGOG000000281641 retrocopy
Mustela putorius furoENSMPUG000000055462 retrocopies
Pteropus vampyrus ENSPVAG000000106341 retrocopy
Pteropus vampyrus ENSPVAG00000013182 2 retrocopies
retro_pvam_148, retro_pvam_706 ,
Rattus norvegicus ENSRNOG000000059811 retrocopy
Sus scrofa ENSSSCG000000229121 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000263632 retrocopies



Copyright © RetrogeneDB 2014-2017