RetrogeneDB ID: | retro_dnov_486 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_521:33090..33428(+) | ||
| Located in intron of: | ENSDNOG00000014103 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NDUFB4 | ||
| Ensembl ID: | ENSDNOG00000024123 | ||
| Aliases: | None | ||
| Description: | NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 4, 15kDa [Source:HGNC Symbol;Acc:7699] |
Retrocopy-Parental alignment summary:
>retro_dnov_486
CTGATGACCCTGCCCACTATTCTCGACCCAAACCAATATGACTTATCTCGAGAAACCCAGCAGAGCCAAGCCAAGCAGCT
CACCTTAAGACCCTGGCTTAAGCGGGAAAACCTGCTCACGTCCAGTGAGCCCAGCCTCTGAGGGCTCATCCAAGACCCTG
CCATGATTTGTAGGACCCACATGAGACAGCAAAGGTCTACCTCGATTTCAGACTTACTCCCAATGTGCGGAGCTCTTTTG
GGATTGGGCCCCTCTTCTGGTATTATGTTTTCAAAAGTGACAGAGATAGGAAAGAAAAACTCATCCAAGAAGGAAAATTG
GACAAAACCTTTAACATC
ORF - retro_dnov_486 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 53.39 % |
| Parental protein coverage: | 90.7 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LATLPTTLNPAEYDIFPETRRAEAERLAIRSRLKREYLLQYNDPSRRGLIEDPALLRWTYAR-SANIYPN |
| L.TLPT.L.P..YD...ET....A..L..R..LKRE.LL....PS..GLI.DPA....T..R..A..Y.. | |
| Retrocopy | LMTLPTILDPNQYDLSRETQQSQAKQLTLRPWLKRENLLTSSEPSL*GLIQDPAMICRTHMR<TAKVYLD |
| Parental | FRPTPKSSFLGAVFGIGPLFFWYYIIKTDRDRKEKLIQEGKFDRTGSI |
| FR.TP........FGIGPLF.WYY..K.DRDRKEKLIQEGK.D.T..I | |
| Retrocopy | FRLTPN---VRSSFGIGPLF-WYYVFKSDRDRKEKLIQEGKLDKTFNI |
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 | 77 .20 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 68 .05 RPM |
| SRP012922_heart | 0 .00 RPM | 173 .10 RPM |
| SRP012922_kidney | 0 .00 RPM | 123 .21 RPM |
| SRP012922_liver | 0 .00 RPM | 79 .73 RPM |
| SRP012922_lung | 0 .00 RPM | 36 .81 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 159 .58 RPM |
| SRP012922_spleen | 0 .00 RPM | 37 .54 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_486 was not experimentally validated.