RetrogeneDB ID: | retro_fcat_901 | ||
Retrocopy location | Organism: | Cat (Felis catus) | |
| Coordinates: | B3:63172551..63172890(-) | ||
| Located in intron of: | ENSFCAG00000025975 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | C1orf50 | ||
| Ensembl ID: | ENSFCAG00000012195 | ||
| Aliases: | None | ||
| Description: | chromosome 1 open reading frame 50 [Source:HGNC Symbol;Acc:28795] |
Retrocopy-Parental alignment summary:
>retro_fcat_901
CGGGTCGAGGAGGCTGATGAAGTCATCCGAGCAAATGCCACCAACAAAATAACAGTCGTAGCTGAGCAAATCCAACATTT
ATAAGAACCAGCCAGGAAGGTACTGGAAGATGCTCGCAGAGATGCTGACTTGCACCATGTAGCTTGTAATATAGTAAAAA
AACCTGGCAACATTTATTACCTTTATAAACGGGAGAGTGGTCAGCAGTATTTTTCTATTATTTCTCCAAAGGGGACAAGT
TGTCCATATGACCTCCTTGGCACCTGTAAGCTACAGCATGACTTGTCCTGGACTCCGTATGAGGATATTGAGAAGCATGA
TGCTAAAATCAGCATATTG
ORF - retro_fcat_901 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 85.22 % |
| Parental protein coverage: | 57.58 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | QVQKADEFIRANATNKLTVIAEQIQHLQEQARKVLEDARRDADLHHVACNI-KKPGNIYYLYKRESGQQY |
| .V..ADE.IRANATNK.TV.AEQIQHL.E.ARKVLEDARRDADLHHVACNI.KKPGNIYYLYKRESGQQY | |
| Retrocopy | RVEEADEVIRANATNKITVVAEQIQHL*EPARKVLEDARRDADLHHVACNIVKKPGNIYYLYKRESGQQY |
| Parental | FSIISPKEWGTNCPHDFLGAYKLQHDLSWTPYEDIEKHDAKISIV |
| FSIISPK..GT.CP.D.LG..KLQHDLSWTPYEDIEKHDAKISI. | |
| Retrocopy | FSIISPK--GTSCPYDLLGTCKLQHDLSWTPYEDIEKHDAKISIL |
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 .23 RPM | 16 .18 RPM |
| SRP017611_kidney | 0 .21 RPM | 12 .99 RPM |
| SRP017611_liver | 0 .20 RPM | 9 .30 RPM |
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_901 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_901 was not experimentally validated.
Retrocopy orthology:
Felis catus 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 | |
|---|---|---|---|
| Felis catus | ENSFCAG00000012195 | 1 retrocopy |
retro_fcat_901 ,
|
| Sarcophilus harrisii | ENSSHAG00000014815 | 1 retrocopy |