RetrogeneDB ID: | retro_fcat_489 | ||
Retrocopy location | Organism: | Cat (Felis catus) | |
| Coordinates: | A3:85067552..85068028(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSFCAG00000028183 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_fcat_489
GAGAGTCCCCGTTCTGATGAACGTGGAGACCTTCTGCAGTGCAGAGCCTAAGGCAGTGTGCTTTTTAACACCATGATCAA
GCCTTTTTAAAAGTCTGTTGTCTTCATCCTCCTCCTCACACATCAGTGGGAAAAGGTGGCCCTACTGAGTCCCCTGAAAA
CTCAGACCTGAAACTGGCCATCATCATGCTGATCATCCCCTTCCTCGTCAATGCTTTGATGTTTTGGATAGTGAACAACT
TCAGGAGAAAGGGGAGGCCGAAAGCTAAACTAGAAGAAAGGGGAGCCAATCAGGACTCAAGGGAGGAGAGCAAGGTCCAC
TGCAGGAGGGCTGAGTCCCACGTACAAGGAGTCGGAATCTGCGATCCTGATCTCAACGGATGACAAGATGGAGGTGCGCA
ACGTGGAGGGGCACCTGCGCAGACCAATGCCCTGAAGGCTGCCGAGAAAAAGGAGCACCGCTTACTGTTGCCAGTA
ORF - retro_fcat_489 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 59.15 % |
| Parental protein coverage: | 53.51 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | ESLRFGEYGDPLQCGAWVGQCALYIVIMIFEKSVVFIVLLILQWKKVALLNPI-ENPDLKLAIVMLIVPF |
| ES.R..E.GD.LQC.A..G.......I..F.KSVVFI.LL..QW.KVALL.P..EN.DLKLAI.MLI.PF | |
| Retrocopy | ESPRSDERGDLLQCRA*-GSVLFNTMIKPF*KSVVFILLLTHQWEKVALLSPL<ENSDLKLAIIMLIIPF |
| Parental | FVNALMFWVVDNFLMRKGRTKAKLEERGANQDSRNGSKVRYRRAASHEE-SESEILISADDE-MEESDVE |
| .VNALMFW.V.NF..RKGR.KAKLEERGANQDSR..SKV..RRA.SH.............D..ME...VE | |
| Retrocopy | LVNALMFWIVNNF-RRKGRPKAKLEERGANQDSREESKVHCRRAESHVQ>ESESAILISTDDKMEVRNVE |
| Parental | EDLRRLTP-LKPAKKKKHRFGLPV |
| ..LRR..P.LK.A.KK.HR..LPV | |
| Retrocopy | GHLRRPMP<LKAAEKKEHRLLLPV |
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 | 19 .63 RPM |
| SRP017611_kidney | 0 .00 RPM | 17 .83 RPM |
| SRP017611_liver | 0 .00 RPM | 23 .25 RPM |
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_489 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_489 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Felis catus | ENSFCAG00000028183 | 1 retrocopy |
retro_fcat_489 ,
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