RetrogeneDB ID: | retro_acar_122 | ||
Retrocopylocation | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 4:86684468..86684758(+) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSACAG00000002998 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSACAG00000013018 | ||
| Aliases: | None | ||
| Description: | Thioredoxin [Source:UniProtKB/TrEMBL;Acc:H9GJI5] |
Retrocopy-Parental alignment summary:
>retro_acar_122
GTGAAATTCCAATCAGAACTAGATAGTACTGCAGGGAAACTCATAGTCATTGACTTCTCTATCACATGGTGTGGACCATG
CAAAATGATCAAGCCCTTCTTCTATAGTCTTGTTGAGAAATATAAATATGTCATATTCATTGAAATTGATGTGGATGATG
TTCAGGATGTTGCTGCACATAGTGAAGTGAAGTCCATGCAACATTCCAGTTCTACAAAAACAAGGAAAAAGTGCATGAAT
TTTCCAGAGCAGACAACGAAAGGCTGGAAGAAACCATTAAGAAGCTAAAA
GTGAAATTCCAATCAGAACTAGATAGTACTGCAGGGAAACTCATAGTCATTGACTTCTCTATCACATGGTGTGGACCATG
CAAAATGATCAAGCCCTTCTTCTATAGTCTTGTTGAGAAATATAAATATGTCATATTCATTGAAATTGATGTGGATGATG
TTCAGGATGTTGCTGCACATAGTGAAGTGAAGTCCATGCAACATTCCAGTTCTACAAAAACAAGGAAAAAGTGCATGAAT
TTTCCAGAGCAGACAACGAAAGGCTGGAAGAAACCATTAAGAAGCTAAAA
ORF - retro_acar_122 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 77.55 % |
| Parental protein coverage: | 92.38 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | VEFQSELDNAAEKLVVVDFSATWCGPCKMIKPFFHSLSEKYPDVTFIEIDVDDAQDVAAHCDVKCM-PTF |
| V.FQSELD..A.KL.V.DFS.TWCGPCKMIKPFF.SL.EKY..V.FIEIDVDD.QDVAAH..VK.M..TF | |
| Retrocopy | VKFQSELDSTAGKLIVIDFSITWCGPCKMIKPFFYSLVEKYKYVIFIEIDVDDVQDVAAHSEVKSM<ATF |
| Parental | QFYKNKEKVHEFSGANKEKLEETIKKLK |
| QFYKNKEKVHEFS.A..E.LEETIKKLK | |
| Retrocopy | QFYKNKEKVHEFSRADNERLEETIKKLK |
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 | 285 .32 RPM |
| SRP009831_brain | 0 .00 RPM | 123 .27 RPM |
| SRP009831_dewlap | 0 .72 RPM | 272 .40 RPM |
| SRP009831_embryo | 0 .00 RPM | 130 .11 RPM |
| SRP009831_heart | 0 .00 RPM | 68 .02 RPM |
| SRP009831_liver | 0 .00 RPM | 447 .35 RPM |
| SRP009831_lung | 0 .00 RPM | 132 .33 RPM |
| SRP009831_ovary | 0 .81 RPM | 305 .31 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 32 .05 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_122 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_122 was not experimentally validated.