RetrogeneDB ID: | retro_acar_63 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 1:692332..692857(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GTPBP8 | ||
| Ensembl ID: | ENSACAG00000010189 | ||
| Aliases: | None | ||
| Description: | GTP-binding protein 8 (putative) [Source:HGNC Symbol;Acc:25007] |
Retrocopy-Parental alignment summary:
>retro_acar_63
CCTTCCCGAGAAAATGTCATTGATTATTACTCTTCTGCTGTCCGGATGGATCACGTCCCACAATTGTCCCTACCAGAGGT
TTGCTTTTTAGGAAGAAGTAATGTGGGAAAATCCTCCTTGATAAAAGCCTTATTTTCATTGGCCCCAGATGTTGAAGTCA
GAGTTTCCAAAAATCCAGGTCACACAAAAAAGATGAATTTCTTCAAAGTGGGAAAATTCTTCACCTTGGTTGATATGCCA
GGCTTTGGTTACAGAGCACCCAAAGATTTTGCAGAAATGGTGGAACCTTAATTAAATCATCGTCCAAATTTGCAACGAAC
ATTCTTATTAGTGGATGCCCAAGTAGGGATTCAAGCGATTGACAATACTGCTATGGAAATGTTGGAAGAATTTGGGATTC
CTTATGTTCTTGTTTTAACAAAAATTGATAAAGCATCGAAACGAGTGATGGCAATGAATGTGCTAAAGATTCAGGACTTT
GTAAAGGAAAAAACACAAGTTTGCTTTCCTCAGCTCTTCCCAGTC
ORF - retro_acar_63 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 97.71 % |
| Parental protein coverage: | 62.06 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | PSRENVIDYYSSAVRMDHVPQLSLPEVCFLGRSNVGKSSLIKALFSLAPDVEVRVSKNPGHTKKMNFFKV |
| PSRENVIDYYSSAVRMDHVPQLSLPEVCFLGRSNVGKSSLIKALFSLAPDVEVRVSKNPGHTKKMNFFKV | |
| Retrocopy | PSRENVIDYYSSAVRMDHVPQLSLPEVCFLGRSNVGKSSLIKALFSLAPDVEVRVSKNPGHTKKMNFFKV |
| Parental | GKFFTLVDMPGFGYRAPKDFAEMVEPYLNHRPNLQRTFLLVDAQVGIQEIDNIAIEMLEEFGIPYVLVLT |
| GKFFTLVDMPGFGYRAPKDFAEMVEP.LNHRPNLQRTFLLVDAQVGIQ.IDN.A.EMLEEFGIPYVLVLT | |
| Retrocopy | GKFFTLVDMPGFGYRAPKDFAEMVEP*LNHRPNLQRTFLLVDAQVGIQAIDNTAMEMLEEFGIPYVLVLT |
| Parental | KIDKASKRVMAMNVLKIQDFVKEKTQVCFPQLFPV |
| KIDKASKRVMAMNVLKIQDFVKEKTQVCFPQLFPV | |
| Retrocopy | KIDKASKRVMAMNVLKIQDFVKEKTQVCFPQLFPV |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP009831_adrenal | 3 .51 RPM | 16 .71 RPM |
| SRP009831_brain | 0 .85 RPM | 9 .04 RPM |
| SRP009831_dewlap | 10 .50 RPM | 81 .08 RPM |
| SRP009831_embryo | 0 .80 RPM | 12 .98 RPM |
| SRP009831_heart | 1 .82 RPM | 8 .51 RPM |
| SRP009831_liver | 0 .45 RPM | 10 .23 RPM |
| SRP009831_lung | 0 .71 RPM | 10 .18 RPM |
| SRP009831_ovary | 12 .55 RPM | 69 .19 RPM |
| SRP009831_skeletal_muscle | 0 .51 RPM | 9 .62 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_63 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_63 was not experimentally validated.
Retrocopy orthology:
Anolis carolinensis 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Anolis carolinensis | ENSACAG00000010189 | 1 retrocopy |
retro_acar_63 ,
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