RetrogeneDB ID: | retro_acar_175 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | GL343308.1:1041654..1042140(+) | ||
| 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: | ENSACAG00000014643 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_175
TCAAGCAGTCTGTCATCCTCGACAGGGAGTCCTTGTCCACTTTCTCCTTCAAAATCCACCACTTCTGCAAAGCCTCGTCC
ATGTGAGAAGAGAAATATGATTGCCAAAGCTAGAGAAGAAACTGGTTCCTTGAACCCAGTGCTGAAACTGGGGACCAAGC
AGAGCAGTATCATCATCAGTCTGTGTCAGCAAGGGAATCCCATCCTGAAATTCATCCGCAACGTGCCTTGGGAGTTTGGA
GACATCATCCCAGATTATTTGCTGAGCCAAAGCACCTGCACCCTTTTCCTAAGCCTCCACTACCACAACCTGAACCACAA
TTACATCCACGAATAGCTCTGCAACCTGAGAAAGACCTGTGCGCTGTAGGTGCTTCTGCTTCAGGTCGACATGAAAGATT
GACACCAGTTTCTCAAAGATCTGACCAAGATCTGCATCCTTTCCAGCTGCATTTTGATCCTGGCCTGGACCCCCAAAGAA
ATGGGC
ORF - retro_acar_175 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.37 % |
| Parental protein coverage: | 54.55 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | SSSAPQAKQGTAGIPAAKSTTSAKPPPCEKRNIIAKGIGETSSSNPVLKPGTKQSSIIVSPRQRGNPVLK |
| SSS..............KSTTSAKP.PCEKRN.IAK...ET.S.NPVLK.GTKQSSII.S..Q.GNP.LK | |
| Retrocopy | SSSLSSSTGSPCPLSPSKSTTSAKPRPCEKRNMIAKAREETGSLNPVLKLGTKQSSIIISLCQQGNPILK |
| Parental | FIRNVPWEFGDIVPDYLLGQSTCALFLSLRYHNLNPNYIHDRLRNLGKTYALQVLLLQVDVKDPHRALKD |
| FIRNVPWEFGDI.PDYLL.QSTC.LFLSL.YHNLN.NYIH..L.NL.KT.AL.VLLLQVD.KD.H..LKD | |
| Retrocopy | FIRNVPWEFGDIIPDYLLSQSTCTLFLSLHYHNLNHNYIHE*LCNLRKTCAL*VLLLQVDMKD*HQFLKD |
| Parental | LAKICILSSCTLVLAWSPEEAG |
| L.KICILSSC.L.LAW.P.E.G | |
| Retrocopy | LTKICILSSCILILAWTPKEMG |
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 | 23 .04 RPM |
| SRP009831_brain | 0 .00 RPM | 16 .52 RPM |
| SRP009831_dewlap | 0 .00 RPM | 22 .27 RPM |
| SRP009831_embryo | 0 .00 RPM | 23 .98 RPM |
| SRP009831_heart | 0 .00 RPM | 63 .04 RPM |
| SRP009831_liver | 0 .00 RPM | 38 .04 RPM |
| SRP009831_lung | 0 .00 RPM | 39 .64 RPM |
| SRP009831_ovary | 0 .00 RPM | 19 .81 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 81 .80 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_175 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_175 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 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Anolis carolinensis | ENSACAG00000014643 | 2 retrocopies |
retro_acar_17, retro_acar_175 ,
|
| Canis familiaris | ENSCAFG00000004448 | 1 retrocopy |