RetrogeneDB ID: | retro_eeur_96 | ||
Retrocopy location | Organism: | Hedgehog (Erinaceus europaeus) | |
| Coordinates: | GeneScaffold_5979:55120..55501(+) | ||
| Located in intron of: | ENSEEUG00000005632 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | AIG1 | ||
| Ensembl ID: | ENSEEUG00000012289 | ||
| Aliases: | None | ||
| Description: | androgen-induced 1 [Source:HGNC Symbol;Acc:21607] |
Retrocopy-Parental alignment summary:
>retro_eeur_96
TTTGTTGTAGCAGTTTTCTGGATCATCTATGCTTATGACAGAGAGATGATATATCCGAAGTTGCTTAATAATTTTATCCC
AGGGTGGCTGAATCATGGAATGCATACAACGGTGTTACCCTTTATATTAATCGAGATGAGGACATCCCACCATGAGTATC
CTAGCAGGAGCAGTGGACTCACAGCCATATGCACCTTCTCTGTTGGCTATATATTATGGGTGTGTTGGGTGCATCATGTA
ACTGGGATGTGGGTGTACCCTTTCCTGGAGCACATTGGTCCAGGAGCTAGAATCATCTTCTTTGGATCTACCACCATCTT
AATGAATTTTTTGTACCTGCTGGGTGAAGTTCTGAACAGTTATATCTGGGATACACAGAAA
ORF - retro_eeur_96 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 99.21 % |
| Parental protein coverage: | 55.7 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | FVVAVFWIIYAYDREMIYPKLLDNFIPGWLNHGMHTTVLPFILIEMRTSHHEYPSRSSGLTAICTFSVGY |
| FVVAVFWIIYAYDREMIYPKLL.NFIPGWLNHGMHTTVLPFILIEMRTSHHEYPSRSSGLTAICTFSVGY | |
| Retrocopy | FVVAVFWIIYAYDREMIYPKLLNNFIPGWLNHGMHTTVLPFILIEMRTSHHEYPSRSSGLTAICTFSVGY |
| Parental | ILWVCWVHHVTGMWVYPFLEHIGPGARIIFFGSTTILMNFLYLLGEVLNSYIWDTQK |
| ILWVCWVHHVTGMWVYPFLEHIGPGARIIFFGSTTILMNFLYLLGEVLNSYIWDTQK | |
| Retrocopy | ILWVCWVHHVTGMWVYPFLEHIGPGARIIFFGSTTILMNFLYLLGEVLNSYIWDTQK |
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 |
|---|---|---|
| SRP017611_brain | 12 .09 RPM | 2 .74 RPM |
| SRP017611_kidney | 6 .38 RPM | 1 .31 RPM |
| SRP017611_liver | 4 .02 RPM | 0 .96 RPM |
Erinaceus europaeus was not studied using ChIP-Seq data.
Erinaceus europaeus was not studied using EST data.
Erinaceus europaeus was not studied using FANTOM5 data.
retro_eeur_96 was not experimentally validated.
Retrocopy orthology:
Erinaceus europaeus 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 | |
|---|---|---|---|
| Erinaceus europaeus | ENSEEUG00000012289 | 1 retrocopy |
retro_eeur_96 ,
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