RetrogeneDB ID: | retro_dnov_2553 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_85206:308..634(+) | ||
| 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: | ENSDNOG00000024080 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_dnov_2553
ATGACTGATAAGACTGCAAAAGTAAAAAGCTCTGTTTCTGCCTTGGATGACATCTATCCAGAAACAGAACAATTATTTCC
CTTCAATCCTCTAGATTTTGAGAGTTTTGACCTGCCTGAAGAGCACCAAATTAAATACCTCCCCTTGAAAGGAGTGCCCC
TCATCATCCTTGATGAGGAGAGAGAACTTGAAAAGCTATTAGAGCTGGATCGCCTCTCCAGTAAAGATGCCCTCTCTGAT
ATGGGAATCTACTACTGCAGTCTTCTTCAAGCATTCTGTTGACCCTGGGTGGGGAATTGCTACCTGTTTGCTATGACTTA
GATATT
ORF - retro_dnov_2553 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 73.45 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | MTEKTVKAKSPVPASDDIYPEIEKFFPYNPLDFESFDLPEEHQIAHLPLNGVPLMILDEERELEKLLEL- |
| MT.KT.K.KS.V.A.DDIYPE.E..FP.NPLDFESFDLPEEHQI..LPL.GVPL.ILDEERELEKLLEL. | |
| Retrocopy | MTDKTAKVKSSVSALDDIYPETEQLFPFNPLDFESFDLPEEHQIKYLPLKGVPLIILDEERELEKLLEL< |
| Parental | GPP-SPVKMPSVMWEPN-LLQSPSSILSTLDVELPPVCYDLDI |
| G.P.SPVKMPS..WE...L..S.S.IL.TL..EL.PVCYDLDI | |
| Retrocopy | GSP<SPVKMPSLIWEST>LQSSSS-ILLTLGGELLPVCYDLDI |
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 | 11 .08 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 3 .99 RPM |
| SRP012922_heart | 0 .00 RPM | 0 .70 RPM |
| SRP012922_kidney | 0 .00 RPM | 4 .65 RPM |
| SRP012922_liver | 0 .00 RPM | 0 .62 RPM |
| SRP012922_lung | 0 .00 RPM | 5 .04 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 1 .04 RPM |
| SRP012922_spleen | 0 .00 RPM | 18 .31 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_2553 was not experimentally validated.