RetrogeneDB ID: | retro_cfam_1175 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 25:6366482..6367102(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCAFG00000006268 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | FEZ1 | ||
| Ensembl ID: | ENSCAFG00000010910 | ||
| Aliases: | None | ||
| Description: | fasciculation and elongation protein zeta 1 (zygin I) [Source:HGNC Symbol;Acc:3659] |
Retrocopy-Parental alignment summary:
>retro_cfam_1175
TTCGAGTCTGTGGAGGACCTCGTGAATGAATTTGAGGAGAAGCTCAATGTCTGCTTTCGGAACTACAATGCCAAGACGGA
GACCCTAGCTCCCGTGAAGAACCAGTTCCAGATCCAAGAGGAGGAGGAGACCCTGCAGGATGAGGAGGCTTGGGATGCTC
TGACAGACAATTACATCCCTTCACTCTCAGAAGGCCGGAGGGACCCAAACATGGAGGCTCTGAATGGCAACAGCTCTGAC
ACTGAGATCCACGAGAAAGAAGAGGAAGAGCTGGATGAGAAGAGTGAACGTGATTCTGGCATCAATGAGGAGCCTCTACT
CACAGCAGATCAGGTGATTGAGGAGACTGAAGAAATGATGCAGAACTCCCCAGACCCTGAGGAAGAAGAGGAGGTTCTGG
AAGAGGAGGAGAAGGGAGAAACCTCCTCCCAGGCAGCCTCGGTCCTCCTGCAGGAGATGCGGGTCTTGACCCAGACCTTC
AACAACGACTGGTCCTACAAAGGCCTGAGGCACATGTCGGGGTCGGAGCTGACCGAGCTGCTGGACCAGGTGGAGGGCGC
CACCCCGGCTTCTCGGAGGAGCTGGTGCAGCTGGAGTTTGAGGAGGAAGAGAACTCCTTC
ORF - retro_cfam_1175 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 85.58 % |
| Parental protein coverage: | 52.81 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | FKSMEDLVNEFDEKLNVCFRNYNAKTETLAPVKNQFQIQEEEETLQDEEVWDALTDNYIPSLSEDWRDPN |
| F.S.EDLVNEF.EKLNVCFRNYNAKTETLAPVKNQFQIQEEEETLQDEE.WDALTDNYIPSLSE..RDPN | |
| Retrocopy | FESVEDLVNEFEEKLNVCFRNYNAKTETLAPVKNQFQIQEEEETLQDEEAWDALTDNYIPSLSEGRRDPN |
| Parental | MEALNGNSSDTEIHEKEEEEFNEKSEHDSGINEEPLLTADQVIEEIEEMMQNSPDPEEEEEVLEEEDEGE |
| MEALNGNSSDTEIHEKEEEE..EKSE.DSGINEEPLLTADQVIEE.EEMMQNSPDPEEEEEVLEEE..GE | |
| Retrocopy | MEALNGNSSDTEIHEKEEEELDEKSERDSGINEEPLLTADQVIEETEEMMQNSPDPEEEEEVLEEEEKGE |
| Parental | TSSQADSVLLQEMQALTQTFNNNWSYEGLRHLSGSELTELLDQVEGAI-RDFSEELVQQLARRDELEF |
| TSSQA.SVLLQEM..LTQTFNN.WSY.GLRH.SGSELTELLDQVEGA....FSEELVQ......E..F | |
| Retrocopy | TSSQAASVLLQEMRVLTQTFNNDWSYKGLRHMSGSELTELLDQVEGAT<PGFSEELVQLEFEEEENSF |
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 |
|---|---|---|
| SRP012049_cerebellum | 0 .00 RPM | 291 .43 RPM |
| SRP017611_brain | 0 .48 RPM | 231 .59 RPM |
| SRP017611_kidney | 0 .13 RPM | 39 .56 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .00 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_1175 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_1175 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_1175 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000010910 | 1 retrocopy |
retro_cfam_1175 ,
|