RetrogeneDB ID:

retro_pvam_600

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_3994:20925..21253(-)
Located in intron of:ENSPVAG00000005004
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:UBA52
Ensembl ID:ENSPVAG00000024217
Aliases:None
Description:ubiquitin A-52 residue ribosomal protein fusion product 1 [Source:HGNC Symbol;Acc:12458]


Retrocopy-Parental alignment summary:






>retro_pvam_600
ATGCAGATCTTCGTGAAGACTCTGACAGGCAAGACCATCACACTTGAGGTCGAGTTCAGTGACACCACTGACAACATCAA
AGCTAAAATCCGAGACAAGGAAGACATCCCACCTGGCCAGCAGCGTCTGATTTTTGCCCGCAAACAGCTAGAGGACGGCT
GCACTTCTCAGACTACAATATCCAGAAACAGTCCACCCTGCTCTTGGTGCTTCGTCTGGGGGCAGCATCATCCAGCCCTC
CCTCCGCTAGCTCGCCCAGAAGTACAACTGCGACAAGACGAGCTGCCCCAAGAGTTACTCCCACCTGCATCTTTGTGCTG
CCAGCTGC

ORF - retro_pvam_600 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75. %
Parental protein coverage: 85.94 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKESTLHL
MQIFVKTLTGKTITLEVE.SDT..N.KAKI.DKE.IPP.QQRLIFA.KQLEDG.T..SDYNIQK.STL.L
RetrocopyMQIFVKTLTGKTITLEVEFSDTTDNIKAKIRDKEDIPPGQQRLIFARKQLEDGCT<FSDYNIQKQSTLLL
ParentalVLRL-RGGIIEPSLRQLAQKYNCDKMICRKCYARLHPRAVNC
VLRL..G.II.PSLR.LAQKYNCDK..C.K.Y..LH..A..C
RetrocopyVLRL<GGSIIQPSLR*LAQKYNCDKTSCPKSYSHLHLCAASC

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_600 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 13 parental genes, and 98 retrocopies.

Species Parental gene accession Retrocopies number
Cavia porcellus ENSCPOG000000003513 retrocopies
Echinops telfairi ENSETEG0000000339235 retrocopies
Gorilla gorilla ENSGGOG000000046308 retrocopies
Latimeria chalumnae ENSLACG000000081321 retrocopy
Macropus eugenii ENSMEUG000000131595 retrocopies
Myotis lucifugus ENSMLUG000000295945 retrocopies
Macaca mulatta ENSMMUG000000160857 retrocopies
Mustela putorius furoENSMPUG000000155278 retrocopies
Mus musculus ENSMUSG000000901373 retrocopies
Pongo abelii ENSPPYG000000097462 retrocopies
Pteropus vampyrus ENSPVAG00000024217 19 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000046781 retrocopy
Xiphophorus maculatus ENSXMAG000000039111 retrocopy



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