RetrogeneDB ID: | retro_dnov_2453 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_76059:5166..5867(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DCAF7 | ||
| Ensembl ID: | ENSDNOG00000001071 | ||
| Aliases: | None | ||
| Description: | DDB1 and CUL4 associated factor 7 [Source:HGNC Symbol;Acc:30915] |
Retrocopy-Parental alignment summary:
>retro_dnov_2453
CGCGTTCAGCTTGTTGGTTTAGATGAGGAGAGCTCAGAACTTATTTGCCAAAATACCTTTGACCATCTGTACCCCACCAT
GAAGCTCACGTGGACCCCCAACACAGAAGGCGCCTATCCAGACCTACAGCAACAGGTGGCAACCATCTCCGTGTGGCGGG
TTGGTGGAGCAGAGCCCAGGCTGCAATTTTTTGCTAAATAGTAACAGAACTCTGACTTCCGGGCTCCTCTGACCTCCTTG
TCTGGAATGAGGTGAAGCCTTATCTTTTAGGTACTTCCAGCACAGGTAGGACTTGTACCTCCTGGGCTCTGGTGACAGAG
CAGGTGTTAGGGTGAGGGAATCTCATGTCTGGTTATGTGAAGACCCAGCTGAGCGCCCACTACAAAGAAGTCTGTAATAC
TCCCCTTAGCCGGGCTGGGGGTGGCAGGGACAGGTTTGCCTCCGTGGGCGCCGACGTCTCGCTGTGGATGTTTGACCTCA
GCCATCTAGAACACAGCCCCATTATTTACGAGGCCCCACAGCACCACCTGCTGCTTCGTCTCTGCTGGAACACGCAGGAC
CCTAACTACCTGGCCACCATGGCCATAGCTGGAATGGAGCTGGTCGTTCTGGATGTGCGAGTTCCGTGCACATCTGTTGC
CAGGTTAAACAACCGCTGAGCGTGTGTCAATGGCACATTCATCCTGCCACATCTGTACTGC
ORF - retro_dnov_2453 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 68.49 % |
| Parental protein coverage: | 71.04 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | KVQLVGLDEESSEFICRNTFDHPYPTTKLMWIPDTKGVYPDLLATSGDYLRVWRVGETETRLEC-LLNNN |
| .VQLVGLDEESSE.IC.NTFDH.YPT.KL.W.P.T.G.YPDL.........VWRVG..E.RL...LLN.N | |
| Retrocopy | RVQLVGLDEESSELICQNTFDHLYPTMKLTWTPNTEGAYPDLQQQVAT-ISVWRVGGAEPRLQF>LLNSN |
| Parental | K-NSDFCAPLTSFD-WNEVDPYLLGTSSIDTTCTIWGLETGQVLGRVNLVSGHVKTQLIAHDKEVYDIAF |
| ..NSDF.APLTS...WNEV.PYLLGTSS...TCT.W.L.T.QVLG..NL.SG.VKTQL.AH.KEV..... | |
| Retrocopy | R<NSDFRAPLTSLS<WNEVKPYLLGTSSTGRTCTSWALVTEQVLG*GNLMSGYVKTQLSAHYKEVCNTPL |
| Parental | SR--GGRDMFASVGADGSVRMFDLRHLEHSTIIYEDPQHHPLLRLCWNKQDPNYLATMAMDGMEVVILDV |
| SR..GGRD.FASVGAD.S..MFDL.HLEHS.IIYE.PQHH.LLRLCWN.QDPNYLATMA..GME.V.LDV | |
| Retrocopy | SRAGGGRDRFASVGADVSLWMFDLSHLEHSPIIYEAPQHHLLLRLCWNTQDPNYLATMAIAGMELVVLDV |
| Parental | RVPCTPVARLNNHRACVNGIAWAPHSSC |
| RVPCT.VARLNN..ACVNG....PH..C | |
| Retrocopy | RVPCTSVARLNNR*ACVNGTFILPHLYC |
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 .19 RPM | 34 .23 RPM |
| SRP012922_cerebellum | 0 .14 RPM | 22 .27 RPM |
| SRP012922_heart | 0 .00 RPM | 6 .73 RPM |
| SRP012922_kidney | 0 .00 RPM | 17 .80 RPM |
| SRP012922_liver | 0 .00 RPM | 7 .43 RPM |
| SRP012922_lung | 0 .00 RPM | 16 .49 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 6 .92 RPM |
| SRP012922_spleen | 0 .00 RPM | 23 .69 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_2453 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 | ENSDNOG00000001071 | 1 retrocopy |
retro_dnov_2453 ,
|
| Monodelphis domestica | ENSMODG00000009994 | 1 retrocopy |