RetrogeneDB ID: | retro_acar_76 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 2:9671696..9672716(+) | ||
| Located in intron of: | ENSACAG00000009088 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GLT1D1 | ||
| Ensembl ID: | ENSACAG00000025870 | ||
| Aliases: | None | ||
| Description: | glycosyltransferase 1 domain containing 1 [Source:HGNC Symbol;Acc:26483] |
Retrocopy-Parental alignment summary:
>retro_acar_76
ATGCGTGTGTTGCTCCTGGCCAGTTTGCGAGCCCGGACCGGGAATGGCACCACAGCCCAGAGGATCCAGGATCATCTGGA
AGCTGCCGGCCATGTGTGTTTCCTCAAGGACACGTTTAGCTGTGAGTCCTCTTTGGTCGTCTCAAAGCTCATCTCCTCGG
AGAACTTTGATGCAGCTCTGGCCATTCACCTTTATAAAGCAGGCAGGCTGCTGCAAGGCAGCAGAATTCCTTTTGGTGTC
ATCTTTGGAGGTACGGACATCAATGAAGATGCCAAATGTGAAGAGAAGGTCCGGGTTATGGAGGCAGTGCTGAACGAAGC
CAGGTTTGCTGTGTCTTTCACTGAGGCAATGAGAGAAAGAGCCATATCAAACTGGCCTCACGCCAGAAACAAAATATATG
TCCAGCCTCAAGGAATCGTGACTACCCCCAACATTTCTTTTAACTGGGAGAAATGTCTGCAGAGTGCAGGGATTCCCCAC
AACGGCAACAGTTTGTGTTATTTCCTCCTAATATGTGGTCTGAGAAGAGTCAAGGATCCACTCTATCTAGCAGATGCGTT
TGCAGAATGGCACAGAGAGGACCCCAGCGTACAGCTGATTATCATTGGACCTGCAGTTGATCCAGTGTTTGCAGAGGAAG
TGAAGGAGAAAGTACAAAGGGCGGATGGGGTACATTTGCTGAAGGAGATCCCCCAGGAAGACCTTCATGCTGCTGTGAAG
AAATGCTTTGCTGTTGTGAACAGTTCCATTTCAGAGGGGATGTCAGCCGCACTCTTAGAGGCCATGGATTTAAATGTTCT
AGTACTGGCAAGGAACATCCCAGGAAATGCTGCGATAATCACACACCAAGAAACCGGGCTGTTATATTCAAACCCTGAGG
AATTTGTCCAACTGTCCAAAAGCCTGATCGGTGACCCTTGTCTTCAGAGAAAGATCGTAGCAAGGGCAACGGAGTATGTC
ACAAAGCACCACTCCTGGGAACATGAAAGGAATGCTTATCAAAACTTTGTGCTGAGCCTC
ORF - retro_acar_76 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 97.65 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MRVLLLASLRARTGNGTTAQRIQDHLEAAGHVCFLKDSFSCESSLVVSKLISSENFDAALAIHLYKAGRL |
| MRVLLLASLRARTGNGTTAQRIQDHLEAAGHVCFLKD.FSCESSLVVSKLISSENFDAALAIHLYKAGRL | |
| Retrocopy | MRVLLLASLRARTGNGTTAQRIQDHLEAAGHVCFLKDTFSCESSLVVSKLISSENFDAALAIHLYKAGRL |
| Parental | LQGSRIPFGVIFGGTDINEDTKCEEKVRVMEAVLNEARFVVSFTEAMRERAISNWPHARNKIYVQPQGIV |
| LQGSRIPFGVIFGGTDINED.KCEEKVRVMEAVLNEARF.VSFTEAMRERAISNWPHARNKIYVQPQGIV | |
| Retrocopy | LQGSRIPFGVIFGGTDINEDAKCEEKVRVMEAVLNEARFAVSFTEAMRERAISNWPHARNKIYVQPQGIV |
| Parental | TTPNVSFNWEKCLQSAGIPHDGNSLCYFLLICGLRRVKDPLYLADAFAEWHREDPSVQLIIIGPAVDPVF |
| TTPN.SFNWEKCLQSAGIPH.GNSLCYFLLICGLRRVKDPLYLADAFAEWHREDPSVQLIIIGPAVDPVF | |
| Retrocopy | TTPNISFNWEKCLQSAGIPHNGNSLCYFLLICGLRRVKDPLYLADAFAEWHREDPSVQLIIIGPAVDPVF |
| Parental | AEEVKEKVQRADGVHLLKEIPQEDLHAAVKKCFAVVNSSISEGMSAALLEAMDLNVPVLARNIPGNAAII |
| AEEVKEKVQRADGVHLLKEIPQEDLHAAVKKCFAVVNSSISEGMSAALLEAMDLNV.VLARNIPGNAAII | |
| Retrocopy | AEEVKEKVQRADGVHLLKEIPQEDLHAAVKKCFAVVNSSISEGMSAALLEAMDLNVLVLARNIPGNAAII |
| Parental | THQETGLLYSNPEEFVQLSKSLISDPCLQRKIVARAKEYVTKHHSWEHERNAYQNFVLSL |
| THQETGLLYSNPEEFVQLSKSLI.DPCLQRKIVARA.EYVTKHHSWEHERNAYQNFVLSL | |
| Retrocopy | THQETGLLYSNPEEFVQLSKSLIGDPCLQRKIVARATEYVTKHHSWEHERNAYQNFVLSL |
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 | 0 .03 RPM | 3 .32 RPM |
| SRP009831_brain | 0 .00 RPM | 5 .73 RPM |
| SRP009831_dewlap | 0 .08 RPM | 30 .29 RPM |
| SRP009831_embryo | 0 .06 RPM | 7 .38 RPM |
| SRP009831_heart | 0 .00 RPM | 2 .49 RPM |
| SRP009831_liver | 0 .00 RPM | 4 .54 RPM |
| SRP009831_lung | 0 .50 RPM | 3 .22 RPM |
| SRP009831_ovary | 0 .00 RPM | 30 .85 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 0 .80 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_76 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_76 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 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Anolis carolinensis | ENSACAG00000025870 | 1 retrocopy |
retro_acar_76 ,
|
| Dasypus novemcinctus | ENSDNOG00000017272 | 2 retrocopies |