RetrogeneDB ID: | retro_dnov_2674 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_97209:4351..4799(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSDNOG00000002233 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CALM1 | ||
| Ensembl ID: | ENSDNOG00000004645 | ||
| Aliases: | None | ||
| Description: | calmodulin 1 (phosphorylase kinase, delta) [Source:HGNC Symbol;Acc:1442] |
Retrocopy-Parental alignment summary:
>retro_dnov_2674
ATGGCTGACCAATCGACCGAAGAGCACATTACAGAAGCCAAAGAAGCTTTTTCAGTATTTGACAAGGATGGTGATGGGAT
GATAACAACAAAGGAATTGGGGACTGTAATAAGGTCTCTTGGGCGGAATCCCACAGATGGAGAGTTACAGGACATGATCA
ATGAAGTAGATGCCGATGGTAGCAGCACAAATGACTTTCTGGAATTTCTGACAATGATGGCAAGGAAAATGAAAGGTACA
GACAGTGAAGGAGAAATTTAGAGAAGCATCCCCTGTGTTCGATAAGGATGGCCATGGCTGTATCAGTGCAGCAGAGCTTC
ACCATGTGGAGACAAACCTTGGAGAGAAGTTGATAGAAGAAGAGTTTGATGGAATGATCAAGGAAGAAGATATTGATGGT
GATGGTCAAGTAAACTATGATGAGTTTGTACAAATGATGACGGCAAAG
ORF - retro_dnov_2674 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.0 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFL |
| MADQ.TEE.I.E.KEAFS.FDKDGDG.ITTKELGTV.RSLG.NPT..ELQDMINEVDADG..T.DF.EFL | |
| Retrocopy | MADQSTEEHITEAKEAFSVFDKDGDGMITTKELGTVIRSLGRNPTDGELQDMINEVDADGSSTNDFLEFL |
| Parental | TMMARKMKDTDSEEEI-REAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNY |
| TMMARKMK.TDSE.EI.REA..VFDKDG.G.ISAAEL.HV.TNLGEKL..EE.D.MI.E.DIDGDGQVNY | |
| Retrocopy | TMMARKMKGTDSEGEI>REASPVFDKDGHGCISAAELHHVETNLGEKLIEEEFDGMIKEEDIDGDGQVNY |
| Parental | EEFVQMMTAK |
| .EFVQMMTAK | |
| Retrocopy | DEFVQMMTAK |
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 | 302 .01 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 385 .74 RPM |
| SRP012922_heart | 0 .00 RPM | 135 .74 RPM |
| SRP012922_kidney | 0 .00 RPM | 133 .06 RPM |
| SRP012922_liver | 0 .00 RPM | 89 .94 RPM |
| SRP012922_lung | 0 .00 RPM | 320 .57 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 209 .78 RPM |
| SRP012922_spleen | 0 .00 RPM | 251 .70 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_2674 was not experimentally validated.