RetrogeneDB ID: | retro_fcat_1673 | ||
Retrocopy location | Organism: | Cat (Felis catus) | |
| Coordinates: | E1:42067991..42068424(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KRTAP4-1 | ||
| Ensembl ID: | ENSFCAG00000005246 | ||
| Aliases: | None | ||
| Description: | keratin associated protein 4-1 [Source:HGNC Symbol;Acc:18907] |
Retrocopy-Parental alignment summary:
>retro_fcat_1673
TCTTGCTGCCAGCCTACGTGCTGCAGGACCACCTGCTGCCGGACCACCTGCTGCCAGCCCAGCGGCTGTGGGTCCAGCGG
CTGCGGACACAACTGCGGTGGGTCTAGCGGCTGTGGGTCCAGCTGCTGCCAGCCTTGCTGCTGCCCAACTTGCTGTCACA
CCACCTGCTGCCGGACCACCTGCTGCCAGCCCAGCTGCTGTGGGTCCAGCGGCTGTGGACAAAACTGCTGTGGGTCCCAC
TGCTGCCAGCCAGTTTGCTGTACCCCCGTGTACTGCACAAGAACCTGCTACCACCCCACCTGCTGCTGCCTGCCTGGGTG
CCTAGCCCAGGACTGTGGATCCAGCCACTGCTAGCCTGACTACTGCTCAATATGCTGTCAGTCCACTTGCTGTAGGACCA
CATGCTGCTGCCCTTGCTGTGTCCAGCTGCTGC
ORF - retro_fcat_1673 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 62.09 % |
| Parental protein coverage: | 74.02 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | TCCRPSCCQTTCCRTTCCRPSCCGSSCCRPCCGGSSCCGSSCCQPCCRPTCCQTTCCRTTCCRPSCCGSS |
| .CC.P.CC.TTCCRTTCC.PS.CGSS.C...CGGSS.CGSSCCQPCC.PTCC.TTCCRTTCC.PSCCGSS | |
| Retrocopy | SCCQPTCCRTTCCRTTCCQPSGCGSSGCGHNCGGSSGCGSSCCQPCCCPTCCHTTCCRTTCCQPSCCGSS |
| Parental | CCRPSCCISSCCRPCCCRPSCCISSCCRPSCCQTACCRPSCCGSSCCGSSCCRPSCCISSCCRPSCCGSS |
| .C...CC.S.CC.P.CC.P..C...C..P.CC....C.P.C.....CGSS.C.P..C.S.CC...CC... | |
| Retrocopy | GCGQNCCGSHCCQPVCCTPVYCTRTCYHPTCC----CLPGCLAQD-CGSSHC*PDYC-SICCQSTCCRTT |
| Parental | CCRPSC-CP-SCC |
| CC.P.C.CP.SCC | |
| Retrocopy | CCCPCC<CP<SCC |
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 .11 RPM | 0 .00 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .00 RPM |
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_1673 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_1673 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 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Felis catus | ENSFCAG00000005246 | 1 retrocopy |
retro_fcat_1673 ,
|
| Otolemur garnettii | ENSOGAG00000003102 | 1 retrocopy | |
| Ictidomys tridecemlineatus | ENSSTOG00000004308 | 1 retrocopy | |
| Tupaia belangeri | ENSTBEG00000008312 | 1 retrocopy |