RetrogeneDB ID:

retro_pvam_1089

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_2800:24873..25152(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CSTB
Ensembl ID:ENSPVAG00000007022
Aliases:None
Description:cystatin B (stefin B) [Source:HGNC Symbol;Acc:2482]


Retrocopy-Parental alignment summary:






>retro_pvam_1089
GGATGCTCCGCCACCCATCCTGCCACCGCCGAGATCTAGCCCATCACCGACCAAGTGAAGTCCCAGCTGGAGAAGGGAAA
CAGAAAGTACTCCGTTTTTAAGGCTGTGGAATTCAAGAGCCAGCTGGTCGTGGGGACTAACTACTTCATCAAGGTTCAAG
TTGATGATGATGACGTCATACACATTCGAGTGTTTGAGAATCTCCCTCTTGCAAACATGCCCTTGGCCTTGCATGACTAT
CTGACGGACAAGAGCAGGCGTGACGAGCTGACGTATTTC

ORF - retro_pvam_1089 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.4 %
Parental protein coverage: 94.95 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGTSATQPATANIQDITDQVKSQLEQKTKKKYPIFKAVEFKSQTVAGTNYFIKVQVGDNDFIHIRVFESLP
G.SAT.PATA.I..ITDQVKSQLE.K...KY..FKAVEFKSQ.V.GTNYFIKVQV.D.D.IHIRVFE.LP
RetrocopyGCSATHPATAEI*PITDQVKSQLE-KGNRKYSVFKAVEFKSQLVVGTNYFIKVQVDDDDVIHIRVFENLP
ParentalQENRPVALCDYQTDKSRSDELDYF
..N.P.AL.DY.TDKSR.DEL.YF
RetrocopyLANMPLALHDYLTDKSRRDELTYF

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_1089 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 9 parental genes, and 14 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000005241 retrocopy
Loxodonta africana ENSLAFG000000026641 retrocopy
Myotis lucifugus ENSMLUG000000224571 retrocopy
Macaca mulatta ENSMMUG000000123031 retrocopy
Otolemur garnettii ENSOGAG000000061012 retrocopies
Pteropus vampyrus ENSPVAG00000007022 1 retrocopy
retro_pvam_1089 ,
Pteropus vampyrus ENSPVAG000000127053 retrocopies
Rattus norvegicus ENSRNOG000000012011 retrocopy
Sarcophilus harrisii ENSSHAG000000179523 retrocopies



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