RetrogeneDB ID:

retro_pvam_363

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_2747:77280..77520(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:UBE2D1
Ensembl ID:ENSPVAG00000007394
Aliases:None
Description:ubiquitin-conjugating enzyme E2D 1 [Source:HGNC Symbol;Acc:12474]


Retrocopy-Parental alignment summary:






>retro_pvam_363
ATTGTATTTATAACAAGACTTCATCAAAATATTAATAGTAATGGCAGTATTTGTCTCAATATTCTAAGGTTACAGTGGTC
TCCTGCTTTAACTATTTCTAAAGTTCTTTTATCTATTTGTTCACTGCTATGTGATCCAAACCCAGATGACCCCCTAGTAC
CAGAGATCGCACCAATCTGTAAAACAGCCAGAGATAACTACAGCAGAATATCTTGGGAATGAACTCAGAAGTATGCCATG

ORF - retro_pvam_363 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 72.84 %
Parental protein coverage: 55.1 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalIAFTTKIYHPNINSNGSICLDILRSQWSPALTVSKVLLSICSLLCDPNPDDPLVPDIAQIYKSDKEKYNR
I.F.T...H.NINSNGSICL.ILR.QWSPALT.SKVLLSICSLLCDPNPDDPLVP.IA.I.K.....Y.R
RetrocopyIVFITRL-HQNINSNGSICLNILRLQWSPALTISKVLLSICSLLCDPNPDDPLVPEIAPICKTARDNYSR
ParentalHAREWTQKYAM
...E.TQKYAM
RetrocopyISWE*TQKYAM

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_363 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 18 parental genes, and 91 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000207965 retrocopies
Choloepus hoffmanni ENSCHOG0000000121321 retrocopies
Dasypus novemcinctus ENSDNOG000000138211 retrocopy
Echinops telfairi ENSETEG000000022802 retrocopies
Homo sapiens ENSG000000724012 retrocopies
Macropus eugenii ENSMEUG000000072381 retrocopy
Microcebus murinus ENSMICG000000102531 retrocopy
Myotis lucifugus ENSMLUG0000000571013 retrocopies
Mus musculus ENSMUSG0000001992722 retrocopies
Procavia capensis ENSPCAG000000069981 retrocopy
Pteropus vampyrus ENSPVAG000000017731 retrocopy
Pteropus vampyrus ENSPVAG00000007394 2 retrocopies
retro_pvam_1139, retro_pvam_363 ,
Pteropus vampyrus ENSPVAG000000135751 retrocopy
Pteropus vampyrus ENSPVAG000000154381 retrocopy
Sarcophilus harrisii ENSSHAG000000104811 retrocopy
Tarsius syrichta ENSTSYG000000112293 retrocopies
Tursiops truncatus ENSTTRG000000092448 retrocopies
Vicugna pacos ENSVPAG000000069445 retrocopies



Copyright © RetrogeneDB 2014-2017