RetrogeneDB ID: | retro_cfam_686 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 15:40858217..40858624(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ISCU | ||
| Ensembl ID: | ENSCAFG00000011324 | ||
| Aliases: | LOC477527, ISCU | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cfam_686
GCTCCAGGCCGGCTCTCTCACAAGAAAGTTGCTGATCATTTTGGAAATCCTAGAAATGTGGAGTCCCTTGACAAGACATC
AAAAAATGTTGTAACTGGGCTGGTGGGGGTTCCAGCACGTGGTGACGTAATGACATGGTGGATTCAAGTGGATGAAAAGG
AGAAGATTGTGGATGCCAGGTTTAAAACATTTGGCTCTGGGTCTGTAATTGCCTCCAGCTCACTGGCCCCTGAATGGGTA
ACAGGCCAGAGGGTGGAAGAAGCCTTGACCACGAAGAACAGGGACATCAAGGAGCTCTGCCTGCTGCCCTTGAAACTGCA
CTGCTCCATGATAGCCAAGATGCAATCAAGGCTGCCCTGGCTAGTTAAAAACTGAAACAAGAACCCAAGAAAGGAGAGGT
GGAGAAG
ORF - retro_cfam_686 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 77.54 % |
| Parental protein coverage: | 82.04 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | APARLYHKKVVDHYENPRNVGSLDKTSKNVGTGLVGAPACGDVMKLQIQVDEKGKIVDARFKTFGCGSAI |
| AP.RL.HKKV.DH..NPRNV.SLDKTSKNV.TGLVG.PA.GDVM...IQVDEK.KIVDARFKTFG.GS.I | |
| Retrocopy | APGRLSHKKVADHFGNPRNVESLDKTSKNVVTGLVGVPARGDVMTWWIQVDEKEKIVDARFKTFGSGSVI |
| Parental | ASSSLATEWVKGKTVEEALTIKNTDIAKELCLPPVKLHCSMLA-EDAIKAALADYKLKQEPKKEEAEK |
| ASSSLA.EWV.G..VEEALT.KN.DI.KELCL.P.KLHCSM.A..DAIKAALA..KLKQEPKK.E.EK | |
| Retrocopy | ASSSLAPEWVTGQRVEEALTTKNRDI-KELCLLPLKLHCSMIA<QDAIKAALAS*KLKQEPKKGEVEK |
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 |
|---|---|---|
| SRP012049_cerebellum | 0 .04 RPM | 47 .00 RPM |
| SRP017611_brain | 0 .08 RPM | 44 .38 RPM |
| SRP017611_kidney | 0 .00 RPM | 104 .07 RPM |
| SRP017611_liver | 0 .07 RPM | 29 .37 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_686 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_686 was not experimentally validated.