RetrogeneDB ID: | retro_acar_43 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | LGc:1196945..1197491(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSACAG00000026158 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSACAG00000006351 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_43
CTGCCAAAGACTCCCACCACTCCCAAAATCACCACCTTTCCACCAGTGCCTATCACATGTGACACTGTACGTAGCAAATG
TAGAGAAATGTTGACGTCTTCCCTACAAACAGACAATGACTATGTTGCCATCGGTGCTGACTGTGAAGAGATGGCAGCTC
AAATTGAAGAATTTATATACCAAGATGTCAAGAACACAGACCTGAAGTACAAAAACCGTGTTAGGAGTCACATCTCTAAT
CTGAAAGATTCTAAGAATCCTGACCTCCGAAAGAATGTCTTATGCGGGGTGATCACTCCAGAAGAAATTGCAGTGATGAC
TTCAGAGGAAATGGCCAGCAATGAGCTGAAGGAGATCTGGAAAGCCATGACCAAGGAGGCTATTAGGGAACATCAAATGG
CTAAAACAGGAGGAACCCAGACTGACCTCTTCACCTGCAGAAAGTGTAGGAAGAAGAATTGTACCTACACCCAAGTACAA
ACCCGCAGTTCAGACGAGCCAATGACCACTTTTGTTGTGTGTAATGAATGTGGGAACCACTGGAAG
ORF - retro_acar_43 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 94.57 % |
| Parental protein coverage: | 60.93 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LPKTPTTPKITTFPPVPITCDTVRSKCREMLTSALQTDNDYVAIGVDCEEMAAQIEAFELIYQDVKNTDL |
| LPKTPTTPKITTFPPVPITCDTVRSKCREMLTS.LQTDNDYVAIG.DCEEMAAQIE.F..IYQDVKNTDL | |
| Retrocopy | LPKTPTTPKITTFPPVPITCDTVRSKCREMLTSSLQTDNDYVAIGADCEEMAAQIEEF--IYQDVKNTDL |
| Parental | KYKNRVRSRISNLKDSKNPDLRKNVLCGVITPEQIAVMTSEEMASNELKEIRKAMTKEAIREHQMAKTGG |
| KYKNRVRS.ISNLKDSKNPDLRKNVLCGVITPE.IAVMTSEEMASNELKEI.KAMTKEAIREHQMAKTGG | |
| Retrocopy | KYKNRVRSHISNLKDSKNPDLRKNVLCGVITPEEIAVMTSEEMASNELKEIWKAMTKEAIREHQMAKTGG |
| Parental | TQTDLFTCGKCRKKNCTYTQVQTRSSDEPMTTFVVCNECGNRWK |
| TQTDLFTC.KCRKKNCTYTQVQTRSSDEPMTTFVVCNECGN.WK | |
| Retrocopy | TQTDLFTCRKCRKKNCTYTQVQTRSSDEPMTTFVVCNECGNHWK |
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 .00 RPM | 3 .71 RPM |
| SRP009831_brain | 0 .05 RPM | 23 .76 RPM |
| SRP009831_dewlap | 0 .00 RPM | 8 .02 RPM |
| SRP009831_embryo | 0 .00 RPM | 8 .45 RPM |
| SRP009831_heart | 0 .00 RPM | 7 .89 RPM |
| SRP009831_liver | 0 .00 RPM | 2 .13 RPM |
| SRP009831_lung | 0 .10 RPM | 5 .69 RPM |
| SRP009831_ovary | 0 .00 RPM | 12 .55 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 1 .42 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_43 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_43 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 | ENSACAG00000006351 | 1 retrocopy |
retro_acar_43 ,
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