RetrogeneDB ID: | retro_eeur_141 | ||
Retrocopy location | Organism: | Hedgehog (Erinaceus europaeus) | |
| Coordinates: | GeneScaffold_8851:66331..66839(+) | ||
| Located in intron of: | ENSEEUG00000010770 | ||
Retrocopy information | Ensembl ID: | ENSEEUG00000010872 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KLK13 | ||
| Ensembl ID: | ENSEEUG00000008293 | ||
| Aliases: | None | ||
| Description: | kallikrein-related peptidase 13 [Source:HGNC Symbol;Acc:6361] |
Retrocopy-Parental alignment summary:
>retro_eeur_141
ATGTGGCCCCTGGCGGTGGTGATCAGCCTCCTGACCGTGACCCTGTCAGGCGGCATCTCTCGGGAGTACCCCAAGATCAT
CAATAACACCAATGGTACCAGCGGGTTGCTGCCAGGTGGCTATACCTGTCAGCCCCACTCTCAGCCCTGGCAGGTAGCCC
TGCTAGTTCAGGGGCGGCTGCTCTGTGGGGGAGTCCTGGTCCACCCCAAATGGGTCCTCACTGATGCACACTGTCTGAAG
GAGGGCTACAGAGTCTACCTGGGCAAGCACGCCCTGGGGCGTGTGGAGGCTGGAGAGGAGGTGAGGGAAGTGGTCCGCTC
TATACCCCACCCGAAATACCAGGTCAGCCCCACCCACCTGAACCATGACCATGACATCATGCTTCTGGAGCTGCAGACTC
CGGTCCAGTTCTCCAGCACATCCACACCATGCTCCTCTCGCACAGAGACTGCCTGCCCCTGGCACCTGCTGCCGGATGTC
AGGCTGGAGCACCACCACCAGCCCCCAG
ORF - retro_eeur_141 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 94.19 % |
| Parental protein coverage: | 61.15 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | MWPLAVVISLLTVTLSGGISREYPKIINSTNGTSGLLPGGYTCQPHSQPWQVALLVQGRLLCGGVLVHPK |
| MWPLAVVISLLTVTLSGGISREYPKIIN.TNGTSGLLPGGYTCQPHSQPWQVALLVQGRLLCGGVLVHPK | |
| Retrocopy | MWPLAVVISLLTVTLSGGISREYPKIINNTNGTSGLLPGGYTCQPHSQPWQVALLVQGRLLCGGVLVHPK |
| Parental | WVLTAAHCLKEGYRVYLGKHALGRVEAGEEVREVVRSIPHPKYQVSPTHLNHDHDIMLLELQAPVQFSS- |
| WVLT.AHCLKEGYRVYLGKHALGRVEAGEEVREVVRSIPHPKYQVSPTHLNHDHDIMLLELQ.PVQFSS. | |
| Retrocopy | WVLTDAHCLKEGYRVYLGKHALGRVEAGEEVREVVRSIPHPKYQVSPTHLNHDHDIMLLELQTPVQFSS< |
| Parental | HIRAMPLSHRDCLP-PGTCCRVSGWGTTTSPQ |
| HI..M.LSHRDCLP.PGTCCR.SGW.TTTSPQ | |
| Retrocopy | HIHTMLLSHRDCLP<PGTCCRMSGWSTTTSPQ |
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 | 0 .00 RPM | 0 .00 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .00 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_141 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Erinaceus europaeus | ENSEEUG00000008293 | 1 retrocopy |
retro_eeur_141 ,
|
| Pteropus vampyrus | ENSPVAG00000010413 | 1 retrocopy |