RetrogeneDB ID: | retro_fcat_686 | ||
Retrocopy location | Organism: | Cat (Felis catus) | |
| Coordinates: | B2:17666932..17667391(+) | ||
| Located in intron of: | ENSFCAG00000002768 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TTC19 | ||
| Ensembl ID: | ENSFCAG00000030206 | ||
| Aliases: | None | ||
| Description: | tetratricopeptide repeat domain 19 [Source:HGNC Symbol;Acc:26006] |
Retrocopy-Parental alignment summary:
>retro_fcat_686
CTCCTGAACACAGCCAAGCTGAGCATCACCAAAGATGAGCCAGAAAGGGCTGAGCTAATTTAACATGACACTCATCTTGC
CTAGCAGACCAATAATGGAAAGGCCATCACTTACACTTCCGATTTGATGGCCAACTTAGCATTTATATGGGGTCAGCTTG
AAAATGCTGAAAAGCTTTTTAAAGCAATAATGAGTTACCTGCTTGGAAGGGACATACAATAGGAAAACAATGCAATAATT
CACATCTCTCTAAAGCTGACCAGTATCTATGCTGCTCAAGATAGCCAGCACGAGCAAATTCCCATCTGTGAATTCTACAT
GTCAACTCTAGAGGGAAAAACTGAAAGAGGAAAGGAATTAGCAGAAGACGTTTTGTCGGCAAAAGAGAAAGCCAACACCC
ACCTCCTCCTTGGCATGTGTTTAGACACCTATACTTGCTACCTTCTATTCTCCAAGCAG
ORF - retro_fcat_686 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 73.38 % |
| Parental protein coverage: | 55.6 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LLKRAKLSIMKDEPEEAELILHDALRLAYQSDNRKAITYTYDLMANLAFIRGQLENAEKLFKATMSYLLG |
| LL..AKLSI.KDEPE.AELI.HD...LA.Q..N.KAITYT.DLMANLAFI.GQLENAEKLFKA.MSYLLG | |
| Retrocopy | LLNTAKLSITKDEPERAELI*HDT-HLA*QTNNGKAITYTSDLMANLAFIWGQLENAEKLFKAIMSYLLG |
| Parental | GGMQQEDNAIIEISLKLASIYAAQNRQEFALAGYEFCISTLEEKIEREKELAEDILSVEEKANTHLLLGM |
| ...Q.E.NAII.ISLKL.SIYAAQ..Q.......EF..STLE.K.ER.KELAED.LS..EKANTHLLLGM | |
| Retrocopy | RDIQ*ENNAIIHISLKLTSIYAAQDSQHEQIPICEFYMSTLEGKTERGKELAEDVLSAKEKANTHLLLGM |
| Parental | CLDTYARYLLFSKQ |
| CLDTY..YLLFSKQ | |
| Retrocopy | CLDTYTCYLLFSKQ |
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 | 52 .34 RPM |
| SRP017611_kidney | 0 .00 RPM | 12 .88 RPM |
| SRP017611_liver | 0 .00 RPM | 6 .17 RPM |
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_686 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_686 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 3 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Felis catus | ENSFCAG00000030206 | 1 retrocopy |
retro_fcat_686 ,
|
| Myotis lucifugus | ENSMLUG00000001991 | 1 retrocopy | |
| Tursiops truncatus | ENSTTRG00000002021 | 2 retrocopies |