RetrogeneDB ID: | retro_dnov_1037 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_13912:415..669(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ZNHIT3 | ||
| Ensembl ID: | ENSDNOG00000011745 | ||
| Aliases: | None | ||
| Description: | zinc finger, HIT-type containing 3 [Source:HGNC Symbol;Acc:12309] |
Retrocopy-Parental alignment summary:
>retro_dnov_1037
GATGACTCATCTATAGCTGATTTTATCAATAATGATGAAGAGGAGGACACAGTGTCACCGAATTTAAAGACTCTGGGGGA
ATCTAGAACTTTAGGAAGCTTATTACTCAATCCACACGTAGACTGTTGATGCTCAGCCTCACTCAGGGTGACAACAAAGC
ACAGCTCCTGAGAGCTGATATGTAAGAATCCTTGTTTGTGGAGTTTGTGGACTACTGTTTAAGTATTGTGGAACCTACCC
AAAATGAGTCTTCT
ORF - retro_dnov_1037 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 65.52 % |
| Parental protein coverage: | 55.48 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | DDLSIADFLSSDEEEDRVSLXXXXXXXESATLRSLLLNPHL-RQLMVNLDQGDNKAKLMRAYMQEPLFVE |
| DD.SIADF...DEEED.VS........ES.TL.SLLLNPH..R.LM..L.QGDNKA.L.RA.M.E.LFVE | |
| Retrocopy | DDSSIADFINNDEEEDTVS-PNLKTLGESRTLGSLLLNPHV<RLLMLSLTQGDNKAQLLRADM*ESLFVE |
| Parental | FADCCLSIVEPAQNVSS |
| F.D.CLSIVEP.QN.SS | |
| Retrocopy | FVDYCLSIVEPTQNESS |
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 | 6 .03 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 9 .21 RPM |
| SRP012922_heart | 0 .00 RPM | 5 .34 RPM |
| SRP012922_kidney | 0 .00 RPM | 7 .94 RPM |
| SRP012922_liver | 0 .00 RPM | 4 .80 RPM |
| SRP012922_lung | 0 .00 RPM | 9 .47 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 5 .02 RPM |
| SRP012922_spleen | 0 .00 RPM | 10 .64 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_1037 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 5 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000012672 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000011745 | 1 retrocopy |
retro_dnov_1037 ,
|
| Echinops telfairi | ENSETEG00000018407 | 1 retrocopy | |
| Myotis lucifugus | ENSMLUG00000013155 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000007918 | 1 retrocopy |