RetrogeneDB ID: | retro_eeur_364 | ||
Retrocopy location | Organism: | Hedgehog (Erinaceus europaeus) | |
| Coordinates: | scaffold_270149:15025..15531(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | AEN | ||
| Ensembl ID: | ENSEEUG00000007015 | ||
| Aliases: | None | ||
| Description: | apoptosis enhancing nuclease [Source:HGNC Symbol;Acc:25722] |
Retrocopy-Parental alignment summary:
>retro_eeur_364
CCAAGTAAGATGATAGCAATCGACTGTGAGATGGTGGGCACAGGACTCAAAGGCCATGTCAGCGCCTTGGTGAGATGTAG
TATTGTCAACTATGATGGAGATGTGCTTTATGATGAGTACATCCTGCCCCTGTGCCCCATCGTGTACTACCGCACCAGGT
GGCGTGGCATCTGGAAACAGCACATGGTGAACACCACACCATTTAAGATTCCTTAGAGCTAGGTCTTGAAGATACTCATG
GAGAAGATAGTGGTAGACCATGCCATCCACAACGATTTCAAAGTCCTTTGGTACTTCCATCCCAAGTCCCTCACCCGTGA
CACCTCTCACACCCCACCCCCAACCGTAAGGCTGACTGCCCAGAAAACGCCACCATGTCTTTGAAGCAACTCACCAAGAA
GCTGTTGAGCAGGGACATTCAGGTTGGGAAAAGAGGACACTCCTCAGTGGAAGACGCTCAGGCCACCATAGAACTGTACA
AGTTGGTTGAAGTTGAGTGGGAACAG
ORF - retro_eeur_364 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 52.94 % |
| Parental protein coverage: | 61.23 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | PSKCVALDCEMVGTGPRGRVSELARCSVVSYHGDVLYDKYVQPERPISDYRTRWSGVTRQHMLKAIPFQV |
| PSK..A.DCEMVGTG..G.VS.L.RCS.V.Y.GDVLYD.Y..P..PI..YRTRW.G...QHM....PF.. | |
| Retrocopy | PSKMIAIDCEMVGTGLKGHVSALVRCSIVNYDGDVLYDEYILPLCPIVYYRTRWRGIWKQHMVNTTPFKI |
| Parental | AQKEILRLLKGKVVVGHALHNDFQALKYVHPRSWTRDTTCV-PSLLGQPGLPARSRVSLKDLALQLLHKK |
| .....L..L..K.VV.HA.HNDF..L.Y.HP.S.TRDT....P........P.....SLK.L...LL... | |
| Retrocopy | P*S*VLKILMEKIVVDHAIHNDFKVLWYFHPKSLTRDTSHT<PTPNRKADCPENATMSLKQLTKKLLSRD |
| Parental | IQVGQHGHSSVEDAATAMELYRLVEARWEE |
| IQVG..GHSSVEDA....ELY.LVE..WE. | |
| Retrocopy | IQVGKRGHSSVEDAQATIELYKLVEVEWEQ |
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 | 1 .29 RPM | 2 .09 RPM |
| SRP017611_kidney | 1 .50 RPM | 3 .19 RPM |
| SRP017611_liver | 1 .13 RPM | 1 .77 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_364 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 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000011521 | 1 retrocopy | |
| Erinaceus europaeus | ENSEEUG00000007015 | 1 retrocopy |
retro_eeur_364 ,
|
| Microcebus murinus | ENSMICG00000015849 | 1 retrocopy | |
| Tursiops truncatus | ENSTTRG00000014668 | 1 retrocopy |