RetrogeneDB ID: | retro_fcat_1224 | ||
Retrocopy location | Organism: | Cat (Felis catus) | |
| Coordinates: | C1:158483712..158483998(-) | ||
| Located in intron of: | ENSFCAG00000030802 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MRPL52 | ||
| Ensembl ID: | ENSFCAG00000006625 | ||
| Aliases: | None | ||
| Description: | mitochondrial ribosomal protein L52 [Source:HGNC Symbol;Acc:16655] |
Retrocopy-Parental alignment summary:
>retro_fcat_1224
AGGCAGAGCCTGGCTACCAACCCCTCTGGCTACAGACCCTTTACAGAGTTCCCAGACTGATCTTACACAGATGGCCGCCC
TGTACCTCCAATGAAAGGCCAGCTTTGAAGAAAAGCCCAAAGGGAGATGTTTGCAAGATGAGTTGCACTGCTATCACAGA
AAATGGATGCTGGATTACAGTCATGGCAACTTAGACAGCAGGAGAAGTTGCAGGAAGAAGAAAGGAGGCAGAAAAAGGCT
CTTAAAACCCAAAGACGCTCTACTGCAGAACCCACAACTAAGTCAA
ORF - retro_fcat_1224 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.0 % |
| Parental protein coverage: | 76.42 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | QQGLAANPSGYGPLTELPDWSYADGRPAPPMKGQLRRTAQREKFARRVVLLSQEMDAGLQAWQLRQQ-KL |
| .Q.LA.NPSGY.P.TE.PD.SY.DGRP.PPMKGQL.R.AQRE.FAR.V.LLSQ.MDAGLQ.WQLRQQ.KL | |
| Retrocopy | RQSLATNPSGYRPFTEFPD*SYTDGRPVPPMKGQL*RKAQREMFAR*VALLSQKMDAGLQSWQLRQQEKL |
| Parental | QEEEGKQKNA-LKPKGALLQNPLPSQ |
| QEEE..QK.A.LKPK.ALLQNP..SQ | |
| Retrocopy | QEEERRQKKA>LKPKDALLQNPQLSQ |
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 | 3 .79 RPM |
| SRP017611_kidney | 0 .00 RPM | 15 .15 RPM |
| SRP017611_liver | 0 .00 RPM | 10 .01 RPM |
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_1224 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_1224 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 | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000007264 | 1 retrocopy | |
| Bos taurus | ENSBTAG00000014822 | 1 retrocopy | |
| Felis catus | ENSFCAG00000006625 | 1 retrocopy |
retro_fcat_1224 ,
|
| Tupaia belangeri | ENSTBEG00000000986 | 1 retrocopy |