RetrogeneDB ID: | retro_acar_10 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 4:62241516..62241930(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSACAG00000006100 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSACAG00000015980 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_10
ATGTTGGCCCATCGGCAATGGATGACTGTGCACAACTGCTCAAGTTTCCTCATCAAAAGGAACAAGCAAATGTGCAGCAT
GAAACTCAACAACCTTAAAGCCTGCACGTCCCTTTGCTACAATGGACTCATCCATCATAAAACGGTCAGGGTGGAGCTAG
CTACTGATGACAAGGGTATCATTGTTGTCCTGAAGAAGCTTGCAGGTCAGCAGAAGCCAGCAACTTCCTATGAGAAGATC
ACAATCAACAAAAATTCACATGCCACTCTCATCAGTCTCCAACTCATCACCTGCAAGAACAACTATTGCAAGGACCTGCA
CATAGCTGCCTTGCGTCTCACCAGTACAATTCTATGCAGCCAGAAGCCAGTGGTGGTGAAGAAGAAGCGGACCAGAGCTA
TTAAAGCTGCATAA
ORF - retro_acar_10 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.45 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MSAHLQWMIVRNCSSFLIKRNKQTYSMEPNNLKARNSFRYNGLIHRKTVGVEPAADGKGIVVVLKKRAGQ |
| M.AH.QWM.V.NCSSFLIKRNKQ..SM..NNLKA..S..YNGLIH.KTV.VE.A.D.KGI.VVLKK.AGQ | |
| Retrocopy | MLAHRQWMTVHNCSSFLIKRNKQMCSMKLNNLKACTSLCYNGLIHHKTVRVELATDDKGIIVVLKKLAGQ |
| Parental | RKPATSYEKITINKNARATLSSLRHIIRKNNYRKDLRMAALRRASAILRSQKPVVVKKKRTRATKAA |
| .KPATSYEKITINKN..ATL.SL..I..KNNY.KDL..AALR..S.IL.SQKPVVVKKKRTRA.KAA | |
| Retrocopy | QKPATSYEKITINKNSHATLISLQLITCKNNYCKDLHIAALRLTSTILCSQKPVVVKKKRTRAIKAA |
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 | 1169 .87 RPM |
| SRP009831_brain | 0 .00 RPM | 203 .75 RPM |
| SRP009831_dewlap | 0 .00 RPM | 277 .55 RPM |
| SRP009831_embryo | 0 .00 RPM | 558 .77 RPM |
| SRP009831_heart | 0 .00 RPM | 327 .84 RPM |
| SRP009831_liver | 0 .00 RPM | 278 .18 RPM |
| SRP009831_lung | 0 .00 RPM | 339 .31 RPM |
| SRP009831_ovary | 0 .00 RPM | 214 .55 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 144 .30 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_10 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_10 was not experimentally validated.