RetrogeneDB ID: | retro_acar_146 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 6:63688856..63689942(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KATNB1 | ||
| Ensembl ID: | ENSACAG00000000837 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_146
ATCATGAATATACAGAAAGGAACAACGCTGGTGGAGAGCATGAAGATCAACACCAAAGAAGAGCTGATCGTTGCCGGGTC
TCAGTCCGGCTCTATTCGCATCTGGGACCTGGAGGCTGCCAAAATTCTCCGCACCTTAATGGGCCACAAAGCCAACATCT
GAAGCCTGGACTTCCATCCGTTCGGGGGTTTCGTGGCCTCGGGATCCATGGACACCAACATTAAGCTTTGGGATGTGAGA
AGGAAAGGCTGCATCTTCAGGTACAAAGGCCACTCGCAGGCCGTCCGCTGCCTCCGCTTCAGCCCAGATGGGAAATGGCT
GGCGTCTTCCTCGGACAATCACACGGTGAAGCTCTGGGACCTGGCTGCTGGGAAGATCATGTTTGAGTTCGCGGGACACA
TGGGGCCAGTGAACATGGTGGAATTCCATCCCAACGAATACCTTTTGGCCTCGGGGAGCTCCGACAGAATGATCAGGTTC
TGGGACTTGGAGAAGTTCCAGGTGGTGAGCTGCATCGAGGAAGAGGCCACACCTGCCAGGTGCGTCCTCTTCAACCCAGA
CGGCTGCTGCCTCTTTGCCGGCTGCCAGGACACCCTGCGGGTTTACGGCTGGGAACCGGAGCGCTGCTTTGACGTAGTGC
CCATCAGCTGGGGCAAAGTGGCCGACCTCTCCATCTGCAACAACCAGCTGATCGGCGTCTCCTTCTCGCAAAGCGTGGTC
TCCTCCTTCGTGGTGGACCTCAACCGCGTCACCAGATCTGGCTCCGGCCTCCAGGGCCTGATCCGGGATGACCGACCCCT
CGCACAGCAGCTCCCAGCAACCGGATCCTCCCTGCGGCACATCTACGAACGGCCCTCCGCTGCATGCAGCAAACCTCAGC
GAGTCAAACACAACTCGGAGAGCGAGAGGCGCAGCCCCAGCAGCGAAGACGACCGGGAAGAGAAGGAATCCACCGCTGAA
ATCCAGAATGCAGAGGATTACCAAGAGATCTTCCAGCCAAAGAATTCCATCACCCGAACTCCTCCGCACAAGAGTGAGCC
TTTTCCTGCACCTCCGGAAGATGAACCACCGCCGGTTGCCAAAGAA
ORF - retro_acar_146 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 94.48 % |
| Parental protein coverage: | 54.6 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | IMSLTGHTTPVESVKINTNEELIVAGSQSGSIRIWDLEAAKILRTLMGHKANICSLDFHPFGGFVASGSM |
| IM.....TT.VES.KINT.EELIVAGSQSGSIRIWDLEAAKILRTLMGHKANI.SLDFHPFGGFVASGSM | |
| Retrocopy | IMNIQKGTTLVESMKINTKEELIVAGSQSGSIRIWDLEAAKILRTLMGHKANI*SLDFHPFGGFVASGSM |
| Parental | DTNIKLWDVRRKGCVFRYKGHSQAVRCLRFSPDGKWLASSSDDHTVKLWDLAAGKIMFEFAGHTGPVNMV |
| DTNIKLWDVRRKGC.FRYKGHSQAVRCLRFSPDGKWLASSSD.HTVKLWDLAAGKIMFEFAGH.GPVNMV | |
| Retrocopy | DTNIKLWDVRRKGCIFRYKGHSQAVRCLRFSPDGKWLASSSDNHTVKLWDLAAGKIMFEFAGHMGPVNMV |
| Parental | EFHPNEYLLASGSSDRMIRFWDLEKFQVVSCIEEEATPARCVLFNPDGCCLFAGCQDALRVYGWEPERCF |
| EFHPNEYLLASGSSDRMIRFWDLEKFQVVSCIEEEATPARCVLFNPDGCCLFAGCQD.LRVYGWEPERCF | |
| Retrocopy | EFHPNEYLLASGSSDRMIRFWDLEKFQVVSCIEEEATPARCVLFNPDGCCLFAGCQDTLRVYGWEPERCF |
| Parental | DVVPVSWSKVADLSICNNQLIGVSFSQSVVSSFVVDLNRVTRSGSGLQGLIRDDRPPAQQLPPTGSSLRR |
| DVVP.SW.KVADLSICNNQLIGVSFSQSVVSSFVVDLNRVTRSGSGLQGLIRDDRP.AQQLP.TGSSLR. | |
| Retrocopy | DVVPISWGKVADLSICNNQLIGVSFSQSVVSSFVVDLNRVTRSGSGLQGLIRDDRPLAQQLPATGSSLRH |
| Parental | IYERPSTACSKPQRVKHNSESERRSPSSEDDREEKESTAEIQNPEDYQEIFQPKNSITRTPPHKSEPFPA |
| IYERPS.ACSKPQRVKHNSESERRSPSSEDDREEKESTAEIQN.EDYQEIFQPKNSITRTPPHKSEPFPA | |
| Retrocopy | IYERPSAACSKPQRVKHNSESERRSPSSEDDREEKESTAEIQNAEDYQEIFQPKNSITRTPPHKSEPFPA |
| Parental | PPEDEPPPVAKE |
| PPEDEPPPVAKE | |
| Retrocopy | PPEDEPPPVAKE |
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 | 1 .54 RPM | 4 .79 RPM |
| SRP009831_brain | 1 .56 RPM | 18 .27 RPM |
| SRP009831_dewlap | 71 .46 RPM | 43 .33 RPM |
| SRP009831_embryo | 12 .06 RPM | 66 .86 RPM |
| SRP009831_heart | 0 .83 RPM | 25 .73 RPM |
| SRP009831_liver | 0 .70 RPM | 4 .09 RPM |
| SRP009831_lung | 0 .50 RPM | 14 .41 RPM |
| SRP009831_ovary | 80 .31 RPM | 70 .58 RPM |
| SRP009831_skeletal_muscle | 0 .73 RPM | 4 .22 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_146 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_146 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 | ENSACAG00000000837 | 1 retrocopy |
retro_acar_146 ,
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