RetrogeneDB ID:

retro_pvam_1430

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_8426:60773..61247(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MXD1
Ensembl ID:ENSPVAG00000001244
Aliases:None
Description:MAX dimerization protein 1 [Source:HGNC Symbol;Acc:6761]


Retrocopy-Parental alignment summary:






>retro_pvam_1430
ATGGTGTCGGCGGTTTAGATAAACATCCAGATGCTGCTGGAGGCGGCCGGCTGTCTGGAGCGGCAGGAGAGAGAAGCTAA
ACATGGTCACGCCTCCATCTTACCCTACAGTAACAAAGACAGAGATGCCTTAAAACAAAGGAACAAATCCAAGAAGAATA
ACAGCAGTAGCAGATCGACTCACAATGAAATGGAGAATAGTCGGTCCCATCTTCACTTGTGCCTGGAGAAGTCAAAGGGG
CTAGTACAGCTTGGGCCCAGATGAAACCAACACACCGCATTGAGTTTATGAACAAAAGCCAAATTGCACATAAAAAAACT
AGGTGATTGTGACAGAAAAGCCACTGTCTGAATAGACCAGCTTCAGCGAGAGCGGCAACATCTGAAGAGGCAGCTGGAGA
AACTGGGCATTGAGAGGATATGGAGAGACAGCGTCGGCTCCACGGGCTCCTTGGAGTGCTCAGACTCCGACAGG

ORF - retro_pvam_1430 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.36 %
Parental protein coverage: 100. %
Number of stop codons detected: 4
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAAAVRMNIQMLLEAADYLERREREAEHGYASMLPYNNKDRDALKRRSKSKKNNSSSRSTHNEMEKNRRA
M..AV..NIQMLLEAA..LER.EREA.HG.AS.LPY.NKDRDALK.R.KSKKNNSSSRSTHNEME.N.R.
RetrocopyMVSAV*INIQMLLEAAGCLERQEREAKHGHASILPYSNKDRDALKQRNKSKKNNSSSRSTHNEME-NSRS
ParentalHLRLCLEKLKGLVPLGPESNRHTTLSLLTKAKLHIKKLEDCDRKAIHQIDQLQREQRHLKRQLEKLGIER
HL.LCLEK.KGLV.LGP..N.HT.LSL.TKAKLHIKKL.DCDRKA...IDQLQRE..HLKRQLEKLGIER
RetrocopyHLHLCLEKSKGLVQLGPR*NQHTALSL*TKAKLHIKKLGDCDRKATV*IDQLQRERQHLKRQLEKLGIER
ParentalIRMDSIGSTVSSERSDSDR
I..DS.GST.S.E.SDSDR
RetrocopyIWRDSVGSTGSLECSDSDR

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_1430 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 2 parental genes, and 3 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000030471 retrocopy
Pteropus vampyrus ENSPVAG00000001244 2 retrocopies
retro_pvam_1415, retro_pvam_1430 ,



Copyright © RetrogeneDB 2014-2017