RetrogeneDB ID: | retro_dnov_2044 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_44351:6120..6591(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MRTO4 | ||
| Ensembl ID: | ENSDNOG00000010119 | ||
| Aliases: | None | ||
| Description: | mRNA turnover 4 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:18477] |
Retrocopy-Parental alignment summary:
>retro_dnov_2044
ATCTTCATCTTCTCCGTGGCCAACATGAGGAACAGCAACAAGGACATCCGGGACGCCTGGAAGCACGGTTGGATGTTCTT
TGGCAAAAACAAGGTGGCGATGGTGGCCTTCGGGCGCAGCCCATCTGACGAGTATAAAGACAACCTGCACCAGGTCAGCA
AGAAGCTGAGGGGTGAAGTTGGTCTCCTTTTCGCCAACCTCACTAAAGAAGTAAACAAGTGGTTCACAAAATACAGAGAA
ATGGGCTACGCCCAGCTGGCAACGCAGCACCTTCACAATGAGCCTGGCTCCCCCCGCTGGAGCAGTTCCTCACTCCGTGG
AGCCGCAGCTGAGGCAGCTCGGCCTGCCCACTGCCCTCAGGAGAGGTGCGGTGGCCCTGCTGTCTGGCTACAGGTGCGCA
GGGAGGGTGACATGCTGACCCCGGAGCATGCCCACATCCTGAAGCTTTTTGGGTATAAAATGGCTGAATTC
ORF - retro_dnov_2044 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.39 % |
| Parental protein coverage: | 67.36 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | LFIFSVANMRNSKLKDIRDAWKHSRMFFGKNKVMMVALGRSPSDEYKDNLHQVSKKLRGEVGLLFTNRTK |
| .FIFSVANMRNS..KDIRDAWKH..MFFGKNKV.MVA.GRSPSDEYKDNLHQVSKKLRGEVGLLF.N.TK | |
| Retrocopy | IFIFSVANMRNSN-KDIRDAWKHGWMFFGKNKVAMVAFGRSPSDEYKDNLHQVSKKLRGEVGLLFANLTK |
| Parental | QEVNEWFMKYTEMDYAR-AGN-KAIFTVSLDPGPLEQFPHSMEPQLRQLGLPTALKRGVMTLLSDY-EMC |
| .EVN.WF.KY.EM.YA..AGN....FT.SL.P.P....PHS.EPQLRQLGLPTAL.RG...LLS.Y.... | |
| Retrocopy | -EVNKWFTKYREMGYAQ<AGN<RSTFTMSLAP-PAGAVPHSVEPQLRQLGLPTALRRGAVALLSGY<QVR |
| Parental | KEGDVLTPEQARILKLFGYEMAEF |
| .EGD.LTPE.A.ILKLFGY.MAEF | |
| Retrocopy | REGDMLTPEHAHILKLFGYKMAEF |
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 | 13 .22 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 12 .23 RPM |
| SRP012922_heart | 0 .00 RPM | 7 .89 RPM |
| SRP012922_kidney | 0 .00 RPM | 10 .40 RPM |
| SRP012922_liver | 0 .00 RPM | 6 .04 RPM |
| SRP012922_lung | 0 .00 RPM | 12 .22 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 14 .19 RPM |
| SRP012922_spleen | 0 .00 RPM | 13 .28 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_2044 was not experimentally validated.