RetrogeneDB ID: | retro_dnov_1842 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_32926:43133..43631(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSDNOG00000023812 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ZNF740 | ||
| Ensembl ID: | ENSDNOG00000012901 | ||
| Aliases: | None | ||
| Description: | zinc finger protein 740 [Source:HGNC Symbol;Acc:27465] |
Retrocopy-Parental alignment summary:
>retro_dnov_1842
GCAAGTCTCCTGACTTGTGAAGACCTAGCAGGTATAATTTGGTTCCCACTGCAGTCAACAAGGAAATGATGCTGAGACCA
GACTGCCAGCAAGCTGGCCAAGAATGGCGAGCAGGCAGGTGGCCCTGATGTGCTGAGGTGCTCAAGTCAGGGCCACCAAA
ATGACAGTGATAACTCCCAGAGTCTCAAAGAAGATAACAACTTGGCCGAAGTCTCTCATTCAAAAAAAGACTATTAAAAA
AGGTGGTGGTAGTAGAACAAAATGATTCTTTTTCAAGTAAAGACTCTCAAAATTTTTACTTGTAAGTACTGCTTTGGGAG
ACTTTAGGAGCAGTTACCACCTCAAAAGTCACATCTTTATTCATACAGAAGAGAAGTCATTTGAGTGTCATATATGTGAT
ATGTGCTTTATCCAGAATTATCACCTGGAGTGCCTTAAACGTGTTGCACAGTGGGTGAAAGGCCTTACCAGGGTGAATGG
TGTTATCAGTGTTTTTCC
ORF - retro_dnov_1842 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 69.19 % |
| Parental protein coverage: | 86.32 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 8 |
Retrocopy - Parental Gene Alignment:
| Parental | ASLLACEGLAGV-SLVPTAASKKMML-SQIASKQAENGERAGSPDVLRCSSQGHRKDSDKSRSRKDEDSL |
| ASLL.CE.LAG...LVPTA..K.MML..Q.ASK.A.NGE.AG.PDVLRCSSQGH..DSD.S.S.K....L | |
| Retrocopy | ASLLTCEDLAGI<NLVPTAVNKEMML>DQTASKLAKNGEQAGGPDVLRCSSQGHQNDSDNSQSLKEDNNL |
| Parental | AESSHS-KKTVK-KVVVVEQNGS-FQVKIPKNFICEHCFGA-FRSSYHLKKHILIHTGEKPFECDICDMR |
| AE.SHS.KKT.K.KVVVVEQN.S.FQVK..K.F.C..CFG..FRSSYHLK.HI.IHT.EK.FEC.ICDM. | |
| Retrocopy | AEVSHS>KKTIK>KVVVVEQNDS>FQVKTLKIFTCKYCFGR>FRSSYHLKSHIFIHTEEKSFECHICDMC |
| Parental | FIQKYHLERHKRV-HS-GEKPYQCERCHQCFS |
| FIQ.YHLE..KRV.HS.GE.PYQ.E.C.QCFS | |
| Retrocopy | FIQNYHLECLKRV>HS>GERPYQGEWCYQCFS |
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 | 9 .33 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 7 .42 RPM |
| SRP012922_heart | 0 .00 RPM | 2 .32 RPM |
| SRP012922_kidney | 0 .00 RPM | 3 .56 RPM |
| SRP012922_liver | 0 .00 RPM | 2 .79 RPM |
| SRP012922_lung | 0 .00 RPM | 9 .16 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 2 .60 RPM |
| SRP012922_spleen | 0 .00 RPM | 9 .84 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_1842 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000012901 | 1 retrocopy |
retro_dnov_1842 ,
|
| Microcebus murinus | ENSMICG00000014191 | 1 retrocopy | |
| Tupaia belangeri | ENSTBEG00000015437 | 1 retrocopy |