RetrogeneDB ID: | retro_dnov_617 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_6850:2222..2835(-) | ||
| Located in intron of: | ENSDNOG00000024151 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SULT1C4 | ||
| Ensembl ID: | ENSDNOG00000019282 | ||
| Aliases: | None | ||
| Description: | sulfotransferase family, cytosolic, 1C, member 4 [Source:HGNC Symbol;Acc:11457] |
Retrocopy-Parental alignment summary:
>retro_dnov_617
GCCTTAAACAAGATGGAGGATTTGAGAATTAAGGAAATGGAGCGCATAACTGTGGACTATGTGGGGGGGAATTCTTTGAC
CACACCCACCTGTGAAACCTGGGATCAGATCTGGAACTTCCAAGCAAAGCCTGATGATTTGCTGATTTCTACCTATCCTA
AAGCAGGAACAACACGGACTCAGGGGATAGCAGACATAATACAAAATGGAGGTGAGGTTGAGAAAAGCAAATGAGCGCCT
ACTCATGTACGATTTCCCTTCGTCAAATGCATAATCTCATCCATTGGATCTGGTTTGGAACAAGCTAATGCAATGTCCTC
ACCCCAGACCCTGAAAACTCATCTTCCCATCCACCTGCTGCCCTCATCCTTCCTAGAGAACAATTGTTAAGATAATCTAT
GTAGCAAGAAATTCCAAGGACAATGTGATACCCTACTACCATTTCCAAAGGATGCATAAACCACTTCCTGCTCCAGGAAC
CTGGGAAGAGTATTTTGAGACTTTTCTGTCAGGTAAAGTGTTCTGGGGCTCATGGCATGACCATGTGAAAGGATGGTGGG
AAGCCAAAGTCCATCACTGCATTCTCTCTCTCTTCTATGAAGACACAAAGGAG
ORF - retro_dnov_617 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.02 % |
| Parental protein coverage: | 68.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | ALNKMEDLKIKEMERITVDYVEGILQPTPTCEIWDQIWNFQAKPDDLLISTYPKAGTTWTQEIVDLIQNG |
| ALNKMEDL.IKEMERITVDYV.G....TPTCE.WDQIWNFQAKPDDLLISTYPKAGTT.TQ.I.D.IQNG | |
| Retrocopy | ALNKMEDLRIKEMERITVDYVGGNSLTTPTCETWDQIWNFQAKPDDLLISTYPKAGTTRTQGIADIIQNG |
| Parental | GEVEKSKRAPTHVRFPFIEWIIPSIGSGLEQANAMPSPRILKTHLPIHLLPPSFLEKNC-KIIYVARNPK |
| GEVEKSK.APTHVRFPF...II.SIGSGLEQANAM.SP..LKTHLPIHLLP.SFLE.NC.KIIYVARN.K | |
| Retrocopy | GEVEKSK*APTHVRFPFVKCIISSIGSGLEQANAMSSPQTLKTHLPIHLLPSSFLENNC>KIIYVARNSK |
| Parental | DNMISYYHFHRMNKALPAPGTWEEYFETFLSGKVCWGSWXXXXXXXXXAKAHHRILYLFYEDMKK |
| DN.I.YYHF.RM.K.LPAPGTWEEYFETFLSGKV.WGSW.........AK.HH.IL.LFYED.K. | |
| Retrocopy | DNVIPYYHFQRMHKPLPAPGTWEEYFETFLSGKVFWGSWHDHVKGWWEAKVHHCILSLFYEDTKE |
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 .78 RPM | 28 .00 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 3 .71 RPM |
| SRP012922_heart | 0 .23 RPM | 6 .73 RPM |
| SRP012922_kidney | 0 .55 RPM | 31 .49 RPM |
| SRP012922_liver | 2 .17 RPM | 48 .76 RPM |
| SRP012922_lung | 0 .46 RPM | 16 .95 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 1 .90 RPM |
| SRP012922_spleen | 0 .23 RPM | 12 .02 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_617 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 | ENSDNOG00000019282 | 1 retrocopy |
retro_dnov_617 ,
|
| Tupaia belangeri | ENSTBEG00000011091 | 1 retrocopy |