RetrogeneDB ID: | retro_acar_123 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 4:106351316..106351760(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSACAG00000005040 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_123
ATGCAGCTCAAGGTGAAGAGGCTGCTAGGACAGCAGTGCTGCCTCCAGGTATCCGGTCACGAGAGCATCTCTCTGTTGAA
AAGCCTGGTTTCAGAAGAACTGAAGGTCCCTGAGGATCAGACCACTTTGTTGTTTCAGGGCAAAGTGCTAGATGAGGACC
ACAGATTGTCAGATTATTCTATTGGCCCAGAATCCGTCCTCTATCTTGCCATTAAAAAACCTCAGCTAACGCCTCTGAAT
GAGCCCTCAAAACCCACCTTTGCCCAGGCCCATTCTGTGTGGTACCAGCTCTCCCAAGTCCTGGAGAACCACTTCAGAAC
CTCTGATGCCATAAAAGTTCTTGAAAGAGTCGTGAATGACTACTACAAAAGCCTTGGCTTATTGAGTTTGAAAAACATTG
AAGAGTTAGCCAGGGATATTCTGAATCCCAAGGAAACTGAGGCT
ORF - retro_acar_123 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 53.02 % |
| Parental protein coverage: | 95.51 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MLLTVKALQGRECSLQVSPEERISSLKRLVSEKLNVPVSQQRLLFKGKALADEHRLSDYSIGPESKLNLV |
| M.L.VK.L.G..C.LQVS..E.IS.LK.LVSE.L.VP..Q..LLF.GK.L...HRLSDYSIGPES.L.L. | |
| Retrocopy | MQLKVKRLLGQQCCLQVSGHESISLLKSLVSEELKVPEDQTTLLFQGKVLDEDHRLSDYSIGPESVLYLA |
| Parental | IKPPEKASPEESSRRAGFPQNPAIWHAVAQVLGRHFSGADAEKVLEQLQKDYERSLRLLSLDDIERLATR |
| IK.P......E.S....F.Q....W....QVL..HF...DA.KVLE....DY..SL.LLSL..IE.LA.. | |
| Retrocopy | IKKPQLTPLNEPSKPT-FAQAHSVWYQLSQVLENHFRTSDAIKVLERVVNDYYKSLGLLSLKNIEELARD |
| Parental | LLHPEVAEA |
| .L.P...EA | |
| Retrocopy | ILNPKETEA |
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 .13 RPM | 79 .66 RPM |
| SRP009831_brain | 0 .14 RPM | 88 .95 RPM |
| SRP009831_dewlap | 0 .08 RPM | 101 .67 RPM |
| SRP009831_embryo | 0 .06 RPM | 131 .80 RPM |
| SRP009831_heart | 0 .26 RPM | 58 .06 RPM |
| SRP009831_liver | 0 .00 RPM | 52 .44 RPM |
| SRP009831_lung | 0 .15 RPM | 56 .62 RPM |
| SRP009831_ovary | 0 .08 RPM | 102 .16 RPM |
| SRP009831_skeletal_muscle | 0 .04 RPM | 42 .83 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_123 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_123 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 5 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Anolis carolinensis | ENSACAG00000005040 | 1 retrocopy |
retro_acar_123 ,
|
| Bos taurus | ENSBTAG00000014331 | 1 retrocopy | |
| Callithrix jacchus | ENSCJAG00000016805 | 1 retrocopy | |
| Ochotona princeps | ENSOPRG00000012645 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000037250 | 1 retrocopy |