RetrogeneDB ID: | retro_dnov_1943 | ||
Retrocopylocation | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_38148:7034..7348(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | UFC1 | ||
| Ensembl ID: | ENSDNOG00000013733 | ||
| Aliases: | None | ||
| Description: | ubiquitin-fold modifier conjugating enzyme 1 [Source:HGNC Symbol;Acc:26941] |
Retrocopy-Parental alignment summary:
>retro_dnov_1943
GAGCTGTGGGCACAGTGACCTAAGGAAGAATATCAATCTCTTATCCAAGATGTGGAGAACAAGAAGAATGCGGACAATGA
CTGTTTCCCATGGAGTCCAACAAGGAAGGGGCTCGGTGGTTTGGAAAATGCTGGTACATCCACGACCGCCTCAAATATGA
GTTTGACGTTGAGCTTGATATTCCTATCACATATCCCACTACTGCTCCAGAAACTGCAGTCCCTGGACTGGATGGAAAGA
CAGCAAAGATGTACAGGGGTGGCAAAATATGCCTGCCTGATCATTTCAAGCCTTTGTGGGCCAGGAACGTGCCC
GAGCTGTGGGCACAGTGACCTAAGGAAGAATATCAATCTCTTATCCAAGATGTGGAGAACAAGAAGAATGCGGACAATGA
CTGTTTCCCATGGAGTCCAACAAGGAAGGGGCTCGGTGGTTTGGAAAATGCTGGTACATCCACGACCGCCTCAAATATGA
GTTTGACGTTGAGCTTGATATTCCTATCACATATCCCACTACTGCTCCAGAAACTGCAGTCCCTGGACTGGATGGAAAGA
CAGCAAAGATGTACAGGGGTGGCAAAATATGCCTGCCTGATCATTTCAAGCCTTTGTGGGCCAGGAACGTGCCC
ORF - retro_dnov_1943 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 83.02 % |
| Parental protein coverage: | 74.47 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | ELWVQRLKEEYQSLIRYVENNKNADNDWFR-LESNKEGTRWFGKCWYIHDLLKYEFDIEFDIPVTYPTTA |
| ELW.Q..KEEYQSLI..VEN.KNADND.F...ESNKEG.RWFGKCWYIHD.LKYEFD.E.DIP.TYPTTA | |
| Retrocopy | ELWAQ*PKEEYQSLIQDVENKKNADNDCFP<MESNKEGARWFGKCWYIHDRLKYEFDVELDIPITYPTTA |
| Parental | PEIAVPELDGKTAKMYRGGKICLTDHFKPLWARNVP |
| PE.AVP.LDGKTAKMYRGGKICL.DHFKPLWARNVP | |
| Retrocopy | PETAVPGLDGKTAKMYRGGKICLPDHFKPLWARNVP |
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 |
|---|---|---|
| SRP012922_ascending_colon | 0 .00 RPM | 25 .28 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 20 .35 RPM |
| SRP012922_heart | 0 .00 RPM | 16 .94 RPM |
| SRP012922_kidney | 0 .00 RPM | 32 .03 RPM |
| SRP012922_liver | 0 .00 RPM | 12 .54 RPM |
| SRP012922_lung | 0 .00 RPM | 32 .22 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 16 .44 RPM |
| SRP012922_spleen | 0 .11 RPM | 35 .37 RPM |
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_1943 was not experimentally validated.