RetrogeneDB ID: | retro_dnov_1507 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_22045:38144..38843(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CASP12 | ||
| Ensembl ID: | ENSDNOG00000001797 | ||
| Aliases: | None | ||
| Description: | caspase 12 (gene/pseudogene) [Source:HGNC Symbol;Acc:19004] |
Retrocopy-Parental alignment summary:
>retro_dnov_1507
TGTTATCATAGAGGGAAGATAAAAGAGGCAAGAGATATATCCAGTGATGGAGATGGAAGGCTGAACAGGCCTGGCCCTCA
TCACTTGCAACAAAGAATTTGACTACCTTTCTAAATGATATGGGGCTGAAACTGATATTTTGGGAATGAAAGACCTTCTT
GAAATCCTTGGATACTCAGTGGTTATAAAAGAGAATCTTACAGCTCAGGAAATGGAAACTGAGGTAAGACAGTTTGCTGC
CTGCCCTGAGCACCAATTCTAAGACAGCAATTCCTGGTGTTTATGTCACATGGCATCCTCGATGGAATCTATAGAAGGAA
GCATAGAGATAAAGAGCCAGATATTCTGAATGATGATACCATCTTCTGAATTTTCAACAACTATAACTGCCAGAACTTTA
AAGACAAGCCCAAGATCATCATCATGCAGGCCTGCCAAGTCATAGATGCTGGGATTGTTTTGATGACTGACATGGGAAAA
GCCTCTTCAGCTACATGTAGCTAGCTCTTGCCTTGTTCCATGTCATATGATGCTATTACAAAGGCCCATGTGGAGAAGGA
CTTCATTGCTTTCAAATCTTCAACTCCATATAATATTTCTTGGAGAATTGACACAAATGGCTCTCTCTTTATTTTGTGAC
TTATTCACTACACCAAAGAGTACTCTTTGTGTTACCATTTGGAAGAAGTCTTTCAAAGG
ORF - retro_dnov_1507 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.04 % |
| Parental protein coverage: | 75.65 % |
| Number of stop codons detected: | 5 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | CFFKPPKHQSLNISSDGEGGPNSPG-LIICNKEFDYLSKRHGAEIDIFGMKDLLENLGYSVVVKENLTAQ |
| C...........ISSDG.G..N.PG.LI.CNKEFDYLSK..GAE.DI.GMKDLLE.LGYSVV.KENLTAQ | |
| Retrocopy | CYHRGKIKEARDISSDGDGRLNRPG>LITCNKEFDYLSK*YGAETDILGMKDLLEILGYSVVIKENLTAQ |
| Parental | EMETELRQFAARPEHRFSDST-FLVFMSHGILDGICGRKHRDKEPDILNDDTIFRIFNNCNCQNLKDKPK |
| EMETE.RQFAA.PEH.F.DS..FLVFMSHGILDGI..RKHRDKEPDILNDDTIF.IFNN.NCQN.KDKPK | |
| Retrocopy | EMETEVRQFAACPEHQF*DSN<FLVFMSHGILDGIYRRKHRDKEPDILNDDTIF*IFNNYNCQNFKDKPK |
| Parental | IIITQACRGKGAGIVWMADMGEDSAALCSQLTHCSMSYDAVTKAHVEKDFIAFKSSTPHNISWRLHTDGS |
| III.QAC....AGIV.M.DMG..S.A.CS.L..CSMSYDA.TKAHVEKDFIAFKSSTP.NISWR..T.GS | |
| Retrocopy | IIIMQACQVIDAGIVLMTDMGKASSATCS*LLPCSMSYDAITKAHVEKDFIAFKSSTPYNISWRIDTNGS |
| Parental | LFISRLIHCFKEYSWCCHLEEVFRK |
| LFI..LIH..KEYS.C.HLEEVF.. | |
| Retrocopy | LFIL*LIHYTKEYSLCYHLEEVFQR |
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 | 8 .75 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 0 .96 RPM |
| SRP012922_heart | 0 .00 RPM | 7 .19 RPM |
| SRP012922_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP012922_liver | 0 .00 RPM | 8 .20 RPM |
| SRP012922_lung | 0 .00 RPM | 64 .91 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 0 .35 RPM |
| SRP012922_spleen | 0 .00 RPM | 34 .80 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_1507 was not experimentally validated.
Retrocopy orthology:
Dasypus novemcinctus 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000001797 | 1 retrocopy |
retro_dnov_1507 ,
|
| Dasypus novemcinctus | ENSDNOG00000013931 | 1 retrocopy |