RetrogeneDB ID: | retro_dnov_2080 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_46316:43745..44251(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | AKTIP | ||
| Ensembl ID: | ENSDNOG00000004906 | ||
| Aliases: | None | ||
| Description: | AKT interacting protein [Source:HGNC Symbol;Acc:16710] |
Retrocopy-Parental alignment summary:
>retro_dnov_2080
TATTACTCTGCATTAAATGTGGTTCTGAAAAATATCCATCCATCATGGACTTTATCGAGATGGATATTTAAGTTTACAGT
TTACATCCCTGAATAACTATCCAGATGGTGACTGCCCTTGCCTGGTGTTTGATATTCCCATCTTTCACCTGCTGGTTGAT
GATCCCACCTCAGTTGTACCGGATGTGACGAGAACATTTGCAAATGGAGGCAGAACCATGACCATATTTGTCAAGTATTA
ATGTATGCAAGGAAAGTTTTTGCAAGATTGATACAGTAGGCCCTCTAAACCCAGAGGCTGCTGTGCTGTATGAAAAAGAT
GTTCAGCTTTTAAAAGTAAAGTGGTTGACAGTGTTAATGTGTGAGCTGTTCCTCCATTTGAACAACCTTAAAATAGAGGA
ACCCTGTGCAATTGGCTTTTCTCCATTTAATCCTGACATATATGATAAAACCTGAGAGAAGACGCTGACTCAGAAAAAGT
GTGAAGAACAGTAAAGTAAGAGCATT
ORF - retro_dnov_2080 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 69.89 % |
| Parental protein coverage: | 58.33 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 7 |
Retrocopy - Parental Gene Alignment:
| Parental | YRSAL-MWFGVIFIRHGLYQDG-VFKFTVYIPD-NYPDGDCPRLVFDIPVFHPLVD-PTSGELDVKRAFA |
| Y.SAL.MWF..I.I.HGLY.DG..FKFTVYIP..NYPDGDCP.LVFDIP.FH.LVD.PTS...DV.R.FA | |
| Retrocopy | YYSAL>MWF*KISIHHGLYRDG<IFKFTVYIPE>NYPDGDCPCLVFDIPIFHLLVDDPTSVVPDVTRTFA |
| Parental | -KWRRNHNHIWQVLMYARRVFY-KIDTASPLNPEAAVLYEKDVQL-FKSKVVDSVKVCTARLFDQP-KIE |
| .KWR.NH.HI.QVLMYAR.VF..KIDT..PLNPEAAVLYEKDVQL.FKSKVVDSV.V.....F.QP.KIE | |
| Retrocopy | <KWRQNHDHICQVLMYARKVFA<KIDTVGPLNPEAAVLYEKDVQL<FKSKVVDSVNV*AVPPFEQP>KIE |
| Parental | DPYAISFSPWNPSVHDEAREKMLTQKKPEEQHNKSV |
| .P.AI.FSP.NP...D...EK.LTQKK.EEQ..KS. | |
| Retrocopy | EPCAIGFSPFNPDIYDKT*EKTLTQKKCEEQ*SKSI |
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 | 33 .84 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 49 .63 RPM |
| SRP012922_heart | 0 .00 RPM | 27 .84 RPM |
| SRP012922_kidney | 0 .00 RPM | 47 .37 RPM |
| SRP012922_liver | 0 .00 RPM | 16 .56 RPM |
| SRP012922_lung | 0 .00 RPM | 44 .44 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 56 .77 RPM |
| SRP012922_spleen | 0 .00 RPM | 26 .55 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_2080 was not experimentally validated.