RetrogeneDB ID: | retro_pvam_753 | ||
Retrocopy location | Organism: | Megabat (Pteropus vampyrus) | |
| Coordinates: | scaffold_10675:36987..37368(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RHOXF1 | ||
| Ensembl ID: | ENSPVAG00000009422 | ||
| Aliases: | None | ||
| Description: | Rhox homeobox family, member 1 [Source:HGNC Symbol;Acc:29993] |
Retrocopy-Parental alignment summary:
>retro_pvam_753
ATGGACTACATAGACCATGAAGTCCATGGGAACCACGAGGTCAACAGGAACCATGAGTGTGGCAGGAGTGACCAGGGGCC
TTGGCAGCAGCAGACTGAGATGACTCATGTGATGGCTGTGGCAGCTCCATAGCCCCAGAACAGGCAGCCATGAATCCAGC
GCAGTAAGTTCAGGCCTGCACAGCTGCAGGAGCTGGAAAGCACATTTGAACACACTCAATACCTGGATGTGCCCACAAGA
CAGGCACTTGTAAGCTGCATGGATGTGACTAAAACCAGAGTGCAGGTTTGATTTAAAAATAGGAGGACCAAGTATAGGAT
AAATGAGAGGGCATCGATATTTAGAAATGTACCACCCACTACCTGGAACCACCTTCTTATG
ORF - retro_pvam_753 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 52.34 % |
| Parental protein coverage: | 72.73 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MEDMNHEGDIDHKGDQGNIDHGNHEGGGGDQETWQQQWFTVAVIALQNRQPRIQHNKFTPAQLQELESTF |
| M....HE....H.....N...G....G...Q.T.......VA....QNRQP.IQ..KF.PAQLQELESTF | |
| Retrocopy | MDYIDHEVHGNHEVNR-NHECGRSDQGPWQQQTEMTHVMAVAAP*PQNRQP*IQRSKFRPAQLQELESTF |
| Parental | EHTRYLDAATRQELARHIDVTEAKVQVWLKNRKANYRKNERAPIFRNVLPATLNHLLL |
| EHT.YLD..TRQ.L....DVT...VQV..KNR...YR.NERA.IFRNV.P.T.NHLL. | |
| Retrocopy | EHTQYLDVPTRQALVSCMDVTKTRVQV*FKNRRTKYRINERASIFRNVPPTTWNHLLM |
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_753 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Pteropus vampyrus | ENSPVAG00000009422 | 1 retrocopy |
retro_pvam_753 ,
|
| Ictidomys tridecemlineatus | ENSSTOG00000005297 | 1 retrocopy | |
| Tupaia belangeri | ENSTBEG00000002729 | 1 retrocopy |