RetrogeneDB ID: | retro_acar_64 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 1:21213690..21214062(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GFER | ||
| Ensembl ID: | ENSACAG00000012106 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_64
AAAAACTGGATATGGGGGCAGAAGAGGCAGGGCGCCGTGGAAGCCAGAGCTGAATTGAAAGAGTACCCCCCGGACTGTCC
TCTGGATTGGGAGCAGCTGGAGAGGAGCTCCTGGTCCTTCCTTCATACAATGGCAGCTTACTACCACAACCAGTCCAATA
CAAGCGAGCAGGAGGAAATGGTCCAGTTCATCAACTTATTTCCAAGGTTCTCCCTTGTAACGAATGTGGATTAGATTTTA
GGAAAATGATACAACGGAATCAGCCCAGCGCCTCCAGCAGGCACAATCTGACATAATGGATTTTGCTGGATCCACAATGA
GGTGAACCAGAAACTGGGGAAGCCCGAATTTGACTGTTCCCTCATCGATGAG
ORF - retro_acar_64 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.63 % |
| Parental protein coverage: | 74.25 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | RSWMREQKRQGAAEIGAELKENPLNCPLDREELGRNSWSFLHTMAAYYPDRPNKTEQQEMIQFINLF-SK |
| ..W...QKRQGA.E..AELKE.P..CPLD.E.L.R.SWSFLHTMAAYY....N..EQ.EM.QFINLF.SK | |
| Retrocopy | KNWIWGQKRQGAVEARAELKEYPPDCPLDWEQLERSSWSFLHTMAAYYHNQSNTSEQEEMVQFINLF<SK |
| Parental | VFPCEECREDFRKRIQQNQPDASSQRNLTQW-FCRIHNEVNQKLGKPEFDCSLVDE |
| V.PC.EC..DFRK.IQ.NQP.ASS..NLT.W.FC.IHNEVNQKLGKPEFDCSL.DE | |
| Retrocopy | VLPCNECGLDFRKMIQRNQPSASSRHNLT*W>FCWIHNEVNQKLGKPEFDCSLIDE |
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 | 11 .78 RPM |
| SRP009831_brain | 0 .00 RPM | 10 .32 RPM |
| SRP009831_dewlap | 0 .00 RPM | 42 .78 RPM |
| SRP009831_embryo | 0 .00 RPM | 25 .22 RPM |
| SRP009831_heart | 0 .00 RPM | 13 .18 RPM |
| SRP009831_liver | 0 .00 RPM | 15 .67 RPM |
| SRP009831_lung | 0 .00 RPM | 22 .67 RPM |
| SRP009831_ovary | 0 .00 RPM | 42 .62 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 25 .31 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_64 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_64 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 | ENSACAG00000012106 | 1 retrocopy |
retro_acar_64 ,
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